FB2025_01 , released February 20, 2025
Gene: Dmel\Sema5c
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General Information
Symbol
Dmel\Sema5c
Species
D. melanogaster
Name
Semaphorin 5c
Annotation Symbol
CG5661
Feature Type
protein_coding_gene
FlyBase ID
FBgn0284221
Gene Model Status
Current
Stock Availability
13 publicly available
Gene Summary
Semaphorin 5c (Sema5c) encodes a member of the Semaphorins family, which are membrane and secreted short-range signaling proteins. The product of Sema5c is involved in olfactory behavior. [Date last reviewed: 2019-06-13] (FlyBase Gene Snapshot)
All Summaries
Also Known As

Sema-5c, Sema-3a, Dsema3a, Sema 5c, BG01245

Key Links
Genomic Location
Cytogenetic map
68F2-68F2
Sequence location
Recombination map
3-38
RefSeq locus
NT_037436 REGION:12067511..12081830
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
Gene Ontology (GO) Annotations (9 terms)
Molecular Function (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
enables chemorepellent activity
inferred from biological aspect of ancestor with PANTHER:PTN000867340
(GO Reference Genome Project, 2011-)
enables semaphorin receptor binding
inferred from biological aspect of ancestor with PANTHER:PTN000112368
(GO Reference Genome Project, 2011-)
inferred from electronic annotation with InterPro:IPR027231
(InterPro Project Members, 2004-)
Biological Process (6 terms)
Terms Based on Experimental Evidence (3 terms)
CV Term
Evidence
References
involved_in central complex development
inferred from mutant phenotype
(Rollmann et al., 2007)
involved_in embryonic development via the syncytial blastoderm
inferred from expression pattern
(Khare et al., 2000)
involved_in olfactory behavior
inferred from mutant phenotype
(Rollmann et al., 2007)
Terms Based on Predictions or Assertions (3 terms)
CV Term
Evidence
References
involved_in axon guidance
inferred from biological aspect of ancestor with PANTHER:PTN000112368
(GO Reference Genome Project, 2011-)
involved_in positive regulation of cell migration
inferred from biological aspect of ancestor with PANTHER:PTN000867340
(GO Reference Genome Project, 2011-)
involved_in semaphorin-plexin signaling pathway
inferred from biological aspect of ancestor with PANTHER:PTN000112368
(GO Reference Genome Project, 2011-)
Cellular Component (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
is_active_in plasma membrane
inferred from biological aspect of ancestor with PANTHER:PTN000867340
(GO Reference Genome Project, 2011-)
Gene Group (FlyBase)
Protein Family (UniProt)
Belongs to the semaphorin family. (Q9VTT0)
Protein Signatures (InterPro)
Summaries
Gene Snapshot
Semaphorin 5c (Sema5c) encodes a member of the Semaphorins family, which are membrane and secreted short-range signaling proteins. The product of Sema5c is involved in olfactory behavior. [Date last reviewed: 2019-06-13]
Gene Group (FlyBase)
SEMAPHORINS -
The Semaphorins are a family of membrane and secreted short-range signaling proteins, originally characterized for their role in axon guidance. The major signal transducing receptors for the semaphorins are the plexins. (Adapted from FBrf0233112, FBrf0137217 and PMID:23253452).
Protein Function (UniProtKB)
Regulates the motility of migrating epithelial cells by providing guidance cues within the migratory environment and may also play a role in development of the olfactory system (PubMed:17435226, PubMed:30827914). May act as a positive axonal guidance cue (By similarity). Function in neurons is essential for adult survival and is important for climbing behavior (PubMed:37041188). Promotes collective migration of follicular epithelial cells in egg chambers, likely by acting at the leading edge of the basal epithelium cells to provide guidance cues across the cell boundary to the trailing edge of the cell ahead (PubMed:30827914). The transmembrane receptor PlexA on the trailing edge of the cell ahead, appears to transduce this signal to suppress the formation of protrusions (PubMed:30827914). Involved in olfactory avoidance behavior (PubMed:17435226).
(UniProt, Q9VTT0)
Gene Model and Products
Number of Transcripts
2
Number of Unique Polypeptides
2

Please see the JBrowse view of Dmel\Sema5c for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)
Isoform displayed:
Pfam protein domains
InterPro name
classification
start
end
Protein Domains (via SMART)
Isoform displayed:
SMART protein domains
InterPro name
classification
start
end
Structure
Protein 3D structure   (Predicted by AlphaFold)   (AlphaFold entry Q9VTT0)

If you don't see a structure in the viewer, refresh your browser.
Model Confidence:
  • Very high (pLDDT > 90)
  • Confident (90 > pLDDT > 70)
  • Low (70 > pLDDT > 50)
  • Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures
Crossreferences
Comments on Gene Model

An additional isoform is postulated to exist lacking one of the Tsp repeatss and encoding a protein of 1029 amino acids (FBrf0137217).

Gene model reviewed during 5.46

Gene model reviewed during 5.55

Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Sema5c-RA
FBtr0076052
NM_137449
4385
1093
Sema5c-RB
FBtr0300339
NM_001169959
4112
1091
Additional Transcript Data and Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
UniProt
RefSeq ID
GenBank
Sema5c-PA
FBpp0075784
121.9
1093
6.84
Q9VTT0
NP_611293
AAF49966
Sema5c-PB
FBpp0289568
121.7
1091
6.84
Q7YU67
NP_001163430
ACZ94701
Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments
Reported size (kDa)

1081 (aa)

(Khare et al., 2000)
Comments
External Data
Crossreferences
InterPro - A database of protein families, domains and functional sites
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Sema5c using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Expression Data
Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

-0.98

Transcript Expression
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 4 -- 6
anlage in statu nascendi
(Fisher et al., 2012)
dorsal ectoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)
organism | gap expression pattern
(Fisher et al., 2012)
organism | segmentally repeated
(Fisher et al., 2012)
posterior ectoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)
ventral ectoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)
embryonic stage 5
organism | striped

Comment: 6 stripes; anterior 3 much more intense

(Khare et al., 2000)
embryonic stage 5 -- 6
mesectoderm | subset
(Kearney et al., 2004)
embryonic stage 7 -- 8
amnioserosa anlage
(Fisher et al., 2012)
antennal anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
central brain anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
dorsal head epidermis anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
visual anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
anterior endoderm anlage
(Fisher et al., 2012)
dorsal ectoderm
(Fisher et al., 2012)
posterior endoderm
(Fisher et al., 2012)
ventral ectoderm
(Fisher et al., 2012)
mesectoderm anlage | subset
(Kearney et al., 2004)
embryonic stage 7 -- 11
organism | striped

Comment: 12 stripes

(Khare et al., 2000)
embryonic stage 8
organism | segmentally repeated | ventral
(Bahri et al., 2001)
organism | dorsal
(Bahri et al., 2001)
inclusive hindgut primordium
(Bahri et al., 2001)
embryonic stage 9 -- 10
amnioserosa
(Fisher et al., 2012)
amnioserosa primordium
(Fisher et al., 2012)
antennal primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
central brain primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
visual primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
dorsal head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
lateral head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
ventral head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
anterior endoderm
(Fisher et al., 2012)
dorsal ectoderm
(Fisher et al., 2012)
inclusive hindgut primordium
(Fisher et al., 2012)
posterior endoderm
(Fisher et al., 2012)
ventral ectoderm
(Fisher et al., 2012)
embryonic stage 9 -- 12
midline primordium | subset
(Kearney et al., 2004)
embryonic stage 11
mesoderm | segment polarity expression pattern

Comment: expressed beneath and posterior to the en stripe

(Bahri et al., 2001)
embryonic stage 11 -- 12
amnioserosa
(Fisher et al., 2012)
anterior midgut primordium
(Fisher et al., 2012)
clypeo-labral primordium
(Fisher et al., 2012)
dorsal epidermis primordium
(Fisher et al., 2012)
dorsal head epidermis primordium

Comment: reported as head epidermis primordium

(Fisher et al., 2012)
lateral head epidermis primordium

Comment: reported as head epidermis primordium

(Fisher et al., 2012)
ventral head epidermis primordium

Comment: reported as head epidermis primordium

(Fisher et al., 2012)
foregut primordium
(Fisher et al., 2012)
garland cell primordium
(Fisher et al., 2012)
head mesoderm
(Fisher et al., 2012)
hindgut proper primordium
(Fisher et al., 2012)
posterior midgut primordium
(Fisher et al., 2012)
salivary gland body primordium
(Fisher et al., 2012)
trunk mesoderm
(Fisher et al., 2012)
ventral epidermis primordium
(Fisher et al., 2012)
embryonic stage 12
stomodeal invagination
(Bahri et al., 2001)
hindgut proper primordium
(Bahri et al., 2001)
fat body primordium
(Bahri et al., 2001)
embryonic epidermis | faint | segment boundary
(Bahri et al., 2001)
posterior midgut primordium
(Bahri et al., 2001)
anterior midgut primordium
(Bahri et al., 2001)
embryonic stage 13 -- 16
larval foregut atrium
(Fisher et al., 2012)
dorsal head epidermis
(Fisher et al., 2012)
embryonic dorsal apodeme
(Fisher et al., 2012)
embryonic dorsal epidermis
(Fisher et al., 2012)
embryonic epipharynx
(Fisher et al., 2012)
embryonic foregut
(Fisher et al., 2012)
embryonic head epidermis
(Fisher et al., 2012)
embryonic head sensory system
(Fisher et al., 2012)
embryonic hindgut
(Fisher et al., 2012)
embryonic hypopharynx
(Fisher et al., 2012)
embryonic ventral apodeme
(Fisher et al., 2012)
embryonic ventral epidermis
(Fisher et al., 2012)
embryonic/larval dorsal vessel
(Fisher et al., 2012)
embryonic/larval midgut
(Fisher et al., 2012)
embryonic stage 14
visceral trunk mesoderm of anterior midgut primordium
(Khare et al., 2000)
embryonic stage 14 -- 17
muscle attachment site
(Khare et al., 2000)
visceral trunk mesoderm of embryonic/larval anterior midgut
(Khare et al., 2000)
embryonic/larval dorsal vessel
(Khare et al., 2000)
larval pericardial cell
(Khare et al., 2000)
embryonic stage 16
muscle attachment site of segment border muscle cell
(Bahri et al., 2001)
muscle attachment site of ventral longitudinal muscle cell
(Bahri et al., 2001)
embryonic/larval dorsal vessel
(Khare et al., 2000)
northern blot
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage
larval pericardial cell
(Khare et al., 2000)
muscle attachment site
(Khare et al., 2000)
embryonic stage & pupal stage
(Khare et al., 2000)
embryonic stage 2
organism | ubiquitous
(Khare et al., 2000)
blastoderm stage
ectoderm | restricted
(Khare et al., 2000)
embryonic stage 12
amnioserosa
(Khare et al., 2000)
adult stage & oogenesis stage S10
nurse cell
(Khare et al., 2000)
oocyte
(Khare et al., 2000)
Additional Descriptive Data

Expression pattern inferred from unspecified enhancer trap line.

(Kearney et al., 2004)

Sema5c transcripts are observed in nurse cells and in the oocyte at stage S10 of oogenesis. In early embryos, transcripts are uniformly distributed. At the blastoderm stage, a pattern of 6 circumferential stripes becomes apparent. The three anterior stripes are stronger than the posterior stripes. During germ band extension, a pattern of 12 weaker stripes is observed and expression is seen in the area of the amnioserosa. At stage 10, expression is most apparent in the mesoderm. At later stages, strong expression is observed at the muscle attachment sites, in the visceral mesoderm of the anterior part of the midgut, and in the dorsal vessel.

(Khare et al., 2000)
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
immunolocalization
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 11
mesoderm | restricted

Comment: extending dorsally from tracheal pits to ventral midline

(Bahri et al., 2001)
embryonic stage 12
fat body primordium
(Bahri et al., 2001)
embryonic stage 16
muscle attachment site of segment border muscle cell
(Bahri et al., 2001)
muscle attachment site of ventral longitudinal muscle cell
(Bahri et al., 2001)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Sema5c in JBrowse
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
Bulk Downloads
RNA-Seq RPKM values for all genes
Reference
See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
Developmental Proteome: Life Cycle
Developmental Proteome: Embryogenesis
External Data and Images
Linkouts
DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 15 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 7 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Sema5c
Transgenic constructs containing regulatory region of Sema5c
Aberrations (Deficiencies and Duplications) ( 1 )
Variants
Variant Molecular Consequences
Alleles Representing Disease-Implicated Variants
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
viable
viable, with Dcr-2UAS.cDa, Scer\GAL4elav.PLu
viable, with Scer\GAL4Mef2.PR
viable, with Scer\GAL4pnr-MD237
viable, with Scer\GAL4tin.CΔ4
viable (with Df(3L)BK9)
Other Phenotypes
Allele
abnormal cell migration | oogenesis
abnormal neuroanatomy | adult stage
abnormal size | oogenesis
abnormal size | oogenesis (with Df(3L)BSC840)
abnormal sleep
abnormal smell perception
abnormal smell perception (with Sema5cBG01245)
abnormal smell perception (with Sema5cE215)
long lived, with Scer\GAL4hs.PB
visible | oogenesis
visible | oogenesis (with Df(3L)BSC840)
Phenotype manifest in
Allele
actin-based cell projection | cell non-autonomous | oogenesis | somatic clone, with Scer\GAL4Act5C.PU
actin-based cell projection | oogenesis
actin-based cell projection | oogenesis, with Scer\GAL4NP1624
actin-based cell projection | oogenesis | somatic clone
actin-based cell projection | somatic clone, with Scer\GAL4Act5C.PU
adult mushroom body alpha-lobe
egg
egg (with Df(3L)BSC840)
egg chamber
ellipsoid body
follicle cell
follicle cell, with Scer\GAL4NP1624
follicle cell | cell non-autonomous | somatic clone, with Scer\GAL4Act5C.PU
follicle cell | somatic clone
follicle cell | somatic clone, with Scer\GAL4Act5C.PU
stress fiber | oogenesis
Orthologs
Downloads
Download All DIOPT Orthologs
Human Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Homo sapiens (Human) (53)
Hsap\SEMA5B
13 of 14
Yes
Yes
Hsap\SEMA5A
12 of 14
No
Yes
Hsap\SEMA4A
3 of 14
No
Yes
1  
Hsap\SEMA4B
3 of 14
No
Yes
Hsap\SEMA4D
3 of 14
No
Yes
Hsap\SEMA4F
3 of 14
No
Yes
Hsap\SEMA3A
2 of 14
No
No
Hsap\SEMA3B
2 of 14
No
No
Hsap\SEMA3C
2 of 14
No
No
Hsap\SEMA3D
2 of 14
No
No
Hsap\SEMA3F
2 of 14
No
No
Hsap\SEMA3G
2 of 14
No
No
Hsap\SEMA4C
2 of 14
No
No
Hsap\SEMA4G
2 of 14
No
No
Hsap\SEMA6A
2 of 14
No
No
Hsap\SEMA6B
2 of 14
No
No
Hsap\SEMA6C
2 of 14
No
No
Hsap\SEMA6D
2 of 14
No
No
Hsap\SEMA7A
2 of 14
No
No
Hsap\ADAMTS2
1 of 14
No
No
Hsap\ADAMTS9
1 of 14
No
No
Hsap\ADAMTS18
1 of 14
No
No
Hsap\ADAMTSL4
1 of 14
No
No
Hsap\ADAMTSL5
1 of 14
No
No
Hsap\ADGRB1
1 of 14
No
No
Hsap\ADGRB2
1 of 14
No
No
Hsap\ADGRB3
1 of 14
No
No
Hsap\CFP
1 of 14
No
Yes
Hsap\CILP
1 of 14
No
Yes
Hsap\HMCN1
1 of 14
No
No
Hsap\MET
1 of 14
No
No
Hsap\MST1R
1 of 14
No
No
Hsap\PAPLN
1 of 14
No
No
Hsap\PLXNA1
1 of 14
No
No
Hsap\PLXNA2
1 of 14
No
No
Hsap\PLXNA3
1 of 14
No
No
1  
Hsap\PLXNA4
1 of 14
No
No
1  
Hsap\PLXNB1
1 of 14
No
No
Hsap\PLXNB2
1 of 14
No
No
1  
Hsap\PLXNB3
1 of 14
No
No
1  
Hsap\PLXNC1
1 of 14
No
No
Hsap\PLXND1
1 of 14
No
No
Hsap\SEMA3E
1 of 14
No
No
Hsap\SPON1
1 of 14
No
No
Hsap\SPON2
1 of 14
No
No
Hsap\SSPOP
1 of 14
No
No
Hsap\THBS1
1 of 14
No
No
Hsap\THBS2
1 of 14
No
No
Hsap\THSD1
1 of 14
No
No
Hsap\THSD4
1 of 14
No
No
Hsap\THSD7B
1 of 14
No
No
Hsap\UNC5B
1 of 14
No
No
Hsap\UNC5D
1 of 14
No
No
Model Organism Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Rattus norvegicus (Norway rat) (41)
Rnor\Sema5b
13 of 14
Yes
Yes
Rnor\Sema5a
12 of 14
No
Yes
Rnor\Sema4a
3 of 14
No
Yes
Rnor\Sema4d
3 of 14
No
No
Rnor\Sema4f
3 of 14
No
Yes
Rnor\Sema3a
2 of 14
No
No
Rnor\Sema3b
2 of 14
No
No
Rnor\Sema3c
2 of 14
No
No
Rnor\Sema3d
2 of 14
No
No
Rnor\Sema3e
2 of 14
No
No
Rnor\Sema3f
2 of 14
No
No
Rnor\Sema3g
2 of 14
No
No
Rnor\Sema4b
2 of 14
No
No
Rnor\Sema4c
2 of 14
No
No
Rnor\Sema4g
2 of 14
No
No
Rnor\Sema6b
2 of 14
No
No
Rnor\Sema6c
2 of 14
No
No
Rnor\Sema6d
2 of 14
No
No
Rnor\Adamts2
1 of 14
No
No
Rnor\Adgrb1
1 of 14
No
No
Rnor\Adgrb2
1 of 14
No
No
Rnor\Hmcn1
1 of 14
No
No
Rnor\Met
1 of 14
No
No
Rnor\Mst1r
1 of 14
No
No
Rnor\Papln
1 of 14
No
No
Rnor\Plxna1
1 of 14
No
No
Rnor\Plxna2
1 of 14
No
No
Rnor\Plxna3
1 of 14
No
No
Rnor\Plxna4
1 of 14
No
No
Rnor\Plxnb1
1 of 14
No
No
Rnor\Plxnb2
1 of 14
No
No
Rnor\Plxnb3
1 of 14
No
No
Rnor\Plxnc1
1 of 14
No
No
Rnor\Plxnd1
1 of 14
No
No
Rnor\Sema6a
1 of 14
No
No
Rnor\Sema7a
1 of 14
No
No
Rnor\Spon1
1 of 14
No
No
Rnor\Spon2
1 of 14
No
No
Rnor\Sspo
1 of 14
No
No
Rnor\Thsd1
1 of 14
No
Yes
Rnor\Thsd7b
1 of 14
No
No
Mus musculus (laboratory mouse) (41)
Mmus\Sema5b
13 of 14
Yes
Yes
Mmus\Sema5a
12 of 14
No
Yes
Mmus\Sema4b
3 of 14
No
Yes
Mmus\Sema4d
3 of 14
No
Yes
Mmus\Sema4f
3 of 14
No
Yes
Mmus\Sema3a
2 of 14
No
No
Mmus\Sema3b
2 of 14
No
No
Mmus\Sema3c
2 of 14
No
No
Mmus\Sema3d
2 of 14
No
No
Mmus\Sema3e
2 of 14
No
No
Mmus\Sema3f
2 of 14
No
No
Mmus\Sema3g
2 of 14
No
No
Mmus\Sema4a
2 of 14
No
No
Mmus\Sema4c
2 of 14
No
No
Mmus\Sema4g
2 of 14
No
No
Mmus\Sema6a
2 of 14
No
No
Mmus\Sema6b
2 of 14
No
No
Mmus\Sema6c
2 of 14
No
No
Mmus\Sema6d
2 of 14
No
No
Mmus\Sspo
2 of 14
No
No
Mmus\Adamtsl5
1 of 14
No
No
Mmus\Adgrb1
1 of 14
No
No
Mmus\Adgrb2
1 of 14
No
No
Mmus\Cilp
1 of 14
No
Yes
Mmus\Hmcn1
1 of 14
No
No
Mmus\Met
1 of 14
No
No
Mmus\Mst1r
1 of 14
No
No
Mmus\Papln
1 of 14
No
No
Mmus\Plxna1
1 of 14
No
No
Mmus\Plxna2
1 of 14
No
No
Mmus\Plxna3
1 of 14
No
No
Mmus\Plxna4
1 of 14
No
No
Mmus\Plxnb1
1 of 14
No
No
Mmus\Plxnb2
1 of 14
No
No
Mmus\Plxnb3
1 of 14
No
No
Mmus\Plxnc1
1 of 14
No
No
Mmus\Plxnd1
1 of 14
No
No
Mmus\Sema7a
1 of 14
No
No
Mmus\Spon1
1 of 14
No
No
Mmus\Spon2
1 of 14
No
No
Mmus\Thsd1
1 of 14
No
Yes
Xenopus tropicalis (Western clawed frog) (28)
Xtro\sema5b
8 of 13
Yes
Yes
Xtro\sema4d
2 of 13
No
Yes
Xtro\adamts2
1 of 13
No
Yes
Xtro\adamts14
1 of 13
No
No
Xtro\adamts17
1 of 13
No
No
Xtro\adamtsl4
1 of 13
No
No
Xtro\adamtsl5
1 of 13
No
No
Xtro\c8b
1 of 13
No
Yes
Xtro\cilp
1 of 13
No
Yes
Xtro\dok2
1 of 13
No
No
Xtro\hmcn1
1 of 13
No
No
Xtro\krt80
1 of 13
No
Yes
Xtro\LOC100496572
1 of 13
No
No
Xtro\mst1r
1 of 13
No
No
Xtro\plxna2
1 of 13
No
No
Xtro\plxnb2
1 of 13
No
No
Xtro\plxnb3
1 of 13
No
No
Xtro\sdf2l1
1 of 13
No
No
Xtro\sema3b
1 of 13
No
No
Xtro\sema4a
1 of 13
No
Yes
Xtro\sema4b
1 of 13
No
No
Xtro\sema4c
1 of 13
No
No
Xtro\sema4g
1 of 13
No
No
Xtro\sema6b
1 of 13
No
No
Xtro\sema6c
1 of 13
No
No
Xtro\sema6d
1 of 13
No
No
Xtro\spon2
1 of 13
No
No
Xtro\thsd4
1 of 13
No
No
Danio rerio (Zebrafish) (70)
Drer\sema5ba
13 of 14
Yes
Yes
Drer\sema5bb
12 of 14
No
Yes
Drer\sema5a
11 of 14
No
Yes
Drer\sema4ab
3 of 14
No
Yes
Drer\sema4bb
3 of 14
No
Yes
Drer\adamts3
2 of 14
No
No
Drer\LOC798168
2 of 14
No
Yes
Drer\sema3aa
2 of 14
No
No
Drer\sema3ab
2 of 14
No
No
Drer\sema3b
2 of 14
No
No
Drer\sema3bl
2 of 14
No
No
Drer\sema3e
2 of 14
No
No
Drer\sema3fa
2 of 14
No
No
Drer\sema3fb
2 of 14
No
No
Drer\sema3ga
2 of 14
No
No
Drer\sema3gb
2 of 14
No
No
Drer\sema3h
2 of 14
No
No
Drer\sema4ba
2 of 14
No
Yes
Drer\sema4c
2 of 14
No
No
Drer\sema4e
2 of 14
No
No
Drer\sema4ga
2 of 14
No
No
Drer\sema4gb
2 of 14
No
No
Drer\sema6d
2 of 14
No
No
Drer\sema6e
2 of 14
No
No
Drer\adamts2a
1 of 14
No
No
Drer\adamts7
1 of 14
No
No
Drer\adamts13
1 of 14
No
No
Drer\adamtsl5
1 of 14
No
No
Drer\adgrb1a
1 of 14
No
No
Drer\cilp
1 of 14
No
Yes
Drer\hmcn1
1 of 14
No
No
Drer\LOC101886422
1 of 14
No
No
Drer\met
1 of 14
No
No
Drer\mst1ra
1 of 14
No
No
Drer\mst1rb
1 of 14
No
No
Drer\paplna
1 of 14
No
No
Drer\plxna1a
1 of 14
No
No
Drer\plxna1b
1 of 14
No
No
Drer\plxna2
1 of 14
No
No
Drer\plxna3
1 of 14
No
No
Drer\plxna4
1 of 14
No
No
Drer\plxnb1a
1 of 14
No
No
Drer\plxnb1b
1 of 14
No
No
Drer\plxnb2a.1
1 of 14
No
No
Drer\plxnb2a.2
1 of 14
No
No
Drer\plxnb2a.3
1 of 14
No
No
Drer\plxnb2b
1 of 14
No
No
Drer\plxnb3
1 of 14
No
No
Drer\sema3c
1 of 14
No
No
Drer\sema3d
1 of 14
No
No
Drer\sema4d
1 of 14
No
Yes
Drer\sema4f
1 of 14
No
No
Drer\sema6ba
1 of 14
No
No
Drer\sema6bb
1 of 14
No
No
Drer\sema6dl
1 of 14
No
No
Drer\sema7a
1 of 14
No
No
Drer\si:ch211-113g11.6
1 of 14
No
Yes
Drer\si:ch211-129c21.1
1 of 14
No
No
Drer\si:dkey-49n23.1
1 of 14
No
No
Drer\spon1a
1 of 14
No
No
Drer\spon1b
1 of 14
No
No
Drer\spon2a
1 of 14
No
No
Drer\spon2b
1 of 14
No
No
Drer\sspo
1 of 14
No
No
Drer\thbs1b
1 of 14
No
No
Drer\thbs2a
1 of 14
No
No
Drer\thbs2b
1 of 14
No
No
Drer\thsd7ab
1 of 14
No
Yes
Drer\thsd7ba
1 of 14
No
Yes
Drer\thsd7bb
1 of 14
No
Yes
Caenorhabditis elegans (Nematode, roundworm) (36)
Cele\adt-1
2 of 14
Yes
No
Cele\C36B7.5
2 of 14
Yes
Yes
Cele\smp-2
2 of 14
Yes
No
Cele\T21B6.3
2 of 14
Yes
Yes
Cele\adt-2
1 of 14
No
No
Cele\adt-3
1 of 14
No
No
Cele\C27A7.8
1 of 14
No
Yes
Cele\C27A7.9
1 of 14
No
Yes
Cele\C55C3.7
1 of 14
No
Yes
Cele\dpy-31
1 of 14
No
No
Cele\F02H6.6
1 of 14
No
Yes
Cele\F02H6.7
1 of 14
No
Yes
Cele\F11C7.6
1 of 14
No
Yes
Cele\F11C7.7
1 of 14
No
Yes
Cele\F14H12.3
1 of 14
No
Yes
Cele\F35C11.7
1 of 14
No
Yes
Cele\F58F9.6
1 of 14
No
Yes
Cele\F58F9.8
1 of 14
No
Yes
Cele\F58F9.9
1 of 14
No
Yes
Cele\fig-1
1 of 14
No
Yes
Cele\gon-1
1 of 14
No
No
Cele\mab-20
1 of 14
No
No
Cele\madd-4
1 of 14
No
No
Cele\mig-6
1 of 14
No
No
Cele\mig-21
1 of 14
No
Yes
Cele\nas-33
1 of 14
No
No
Cele\nas-36
1 of 14
No
No
Cele\nas-37
1 of 14
No
No
Cele\plx-1
1 of 14
No
No
Cele\plx-2
1 of 14
No
No
Cele\smp-1
1 of 14
No
No
Cele\spon-1
1 of 14
No
No
Cele\T08G3.6
1 of 14
No
Yes
Cele\Y8A9A.2
1 of 14
No
Yes
Cele\Y46D2A.3
1 of 14
No
Yes
Cele\Y64G10A.1
1 of 14
No
Yes
Anopheles gambiae (African malaria mosquito) (10)
Agam\AgaP_AGAP002424
12 of 12
Yes
Yes
Agam\AgaP_AGAP006634
2 of 12
No
No
Agam\AgaP_AGAP006636
2 of 12
No
No
Agam\AgaP_AGAP000064
1 of 12
No
No
Agam\AgaP_AGAP002268
1 of 12
No
No
Agam\AgaP_AGAP005742
1 of 12
No
No
Agam\AgaP_AGAP008656
1 of 12
No
No
Agam\AgaP_AGAP011139
1 of 12
No
No
Agam\AgaP_AGAP011765
1 of 12
No
No
Agam\AgaP_AGAP012307
1 of 12
No
No
Arabidopsis thaliana (thale-cress) (0)
Saccharomyces cerevisiae (Brewer's yeast) (0)
Schizosaccharomyces pombe (Fission yeast) (0)
Escherichia coli (enterobacterium) (0)
Other Organism Orthologs (via OrthoDB)
Data provided directly from OrthoDB:Sema5c. Refer to their site for version information.
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v9.1)
Gene Symbol
Score
Source
Compara
Domainoid
eggNOG
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Drosophila melanogaster (Fruit fly) (12)
Sema1a
3 of 13
Sema1b
3 of 13
Sema2a
3 of 13
Sema2b
3 of 13
CG17739
1 of 13
CG30203
1 of 13
fat-spondin
1 of 13
nolo
1 of 13
PlexA
1 of 13
PlexB
1 of 13
Ppn
1 of 13
unc-5
1 of 13
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Ontology (DO) Annotations
    Models Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Evidence
    References
    Potential Models Based on Orthology ( 2 )
    Human Ortholog
    Disease
    Evidence
    References
    SEMA4A; semaphorin 4A
    model of  retinitis pigmentosa 35
    IEA
    (FlyBase, 2019-)
    model of  cone-rod dystrophy 10
    IEA
    (FlyBase, 2019-)
    Modifiers Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Interaction
    References
    Disease Associations of Human Orthologs (via DIOPT v9.1 and OMIM)
    Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
    Homo sapiens (Human)
    Gene name
    Score
    OMIM
    OMIM Phenotype
    DO term
    Complementation?
    Transgene?
    SEMA5B; semaphorin 5B
    13 of 14
    609298
        SEMA5A; semaphorin 5A
        12 of 14
        609297
            SEMA4A; semaphorin 4A
            3 of 14
            607292
             
            SEMA4B; semaphorin 4B
            3 of 14
            617029
                SEMA4D; semaphorin 4D
                3 of 14
                601866
                    SEMA4F; ssemaphorin 4F
                    3 of 14
                    603706
                        Functional Complementation Data
                        Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
                        Interactions
                        Summary of Physical Interactions
                        esyN Network Diagram
                        Show neighbor-neighbor interactions:
                        Show/hide secondary interactors 
                        (data from AllianceMine provided by esyN)
                        Select Layout:
                        Legend:
                        Protein
                        RNA
                        Selected Interactor(s)
                        Other Interaction Browsers
                        View in FlyBase Interactions Browser   View in MIST tool (external link)
                        Please see the Physical Interaction reports below for full details
                        protein-protein
                        Physical Interaction
                        Assay
                        References
                        Sema5c - PlexA
                        enzyme linked immunosorbent assay
                        (Stedden et al., 2019)
                        Summary of Genetic Interactions
                        esyN Network Diagram
                        Show/hide secondary interactors 
                        (data from AllianceMine provided by esyN)
                        esyN Network Key:
                        Suppression
                        Enhancement
                        Other Interaction Browsers
                        View in FlyBase Interactions Browser   View in MIST tool (external link)
                        Please look at the allele data for full details of the genetic interactions
                        Starting gene(s)
                        Interaction type
                        Interacting gene(s)
                        Reference
                        Sema5c
                        suppressible
                        Lar
                        (Stedden et al., 2019)
                        Sema5c
                        enhanceable
                        Lar
                        (Williams and Horne-Badovinac, 2024)
                        Sema5c
                        suppressible
                        PlexA
                        (Stedden et al., 2019)
                        Sema5c
                        enhanceable
                        PlexA
                        (Stedden et al., 2019)
                        Starting gene(s)
                        Interaction type
                        Interacting gene(s)
                        Reference
                        kug
                        enhanceable
                        Sema5c
                        (Stedden et al., 2019)
                        l(2)gl
                        suppressible
                        Sema5c
                        (Woodhouse et al., 2003)
                        Lar
                        enhanceable
                        Sema5c
                        (Williams and Horne-Badovinac, 2024)
                        PlexA
                        enhanceable
                        Sema5c
                        (Stedden et al., 2019)
                        External Data
                        Linkouts
                        Pathways
                        Signaling Pathways (FlyBase)
                        Metabolic Pathways
                        FlyBase
                        External Links
                        External Data
                        Linkouts
                        Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
                        Class of Gene
                        Genomic Location and Detailed Mapping Data
                        Chromosome (arm)
                        3L
                        Recombination map
                        3-38
                        Cytogenetic map
                        68F2-68F2
                        Sequence location
                        FlyBase Computed Cytological Location
                        Cytogenetic map
                        Evidence for location
                        68F2-68F2
                        Limits computationally determined from genome sequence between P{PZ}rols08232&P{lacW}l(3)j2D3j2D3 and P{PZ}l(3)0508805088
                        Experimentally Determined Cytological Location
                        Cytogenetic map
                        Notes
                        References
                        68F-68F
                        (Bahri, 2000.2.3)
                        Experimentally Determined Recombination Data
                        Location

                        3-38

                        (FlyBase, 2016)

                        3-30.8

                        (Comeron et al., 2012)

                        3-

                        (Khare, 1999.10.25)
                        Left of (cM)
                        Right of (cM)
                        Notes
                        Stocks and Reagents
                        Stocks (13)
                        Genomic Clones (26)
                        cDNA Clones (44)
                         

                        Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see JBrowse for alignment of the cDNAs and ESTs to the gene model.

                        cDNA clones, fully sequenced
                        BDGP DGC clones
                        Other clones
                          Drosophila Genomics Resource Center cDNA clones

                          For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

                            cDNA Clones, End Sequenced (ESTs)
                            BDGP DGC clones
                            Other clones
                            RNAi and Array Information
                            Linkouts
                            Antibody Information
                            Laboratory Generated Antibodies
                             
                            Commercially Available Antibodies
                             
                            Cell Line Information
                            Publicly Available Cell Lines
                             
                              Other Stable Cell Lines
                               
                                Other Comments

                                Sema-5c is required for normal behavioural responses to the repellent odorant benzaldehyde.

                                (Rollmann et al., 2007)

                                Sema-5c mutants show a reduced behavioural response to the repellent odorant benzaldehyde and have subtle neuroanatomical changes in the brain, with a reduction in size of the ellipsoid body.

                                (Rollmann et al., 2007)

                                ChEST reveals this is a target of Mef2.

                                (Junion et al., 2005)

                                Identification: cDNA screen for secreted and transmembrane proteins expressed during embryogenesis.

                                (Kopczynski et al., 1998)
                                Relationship to Other Genes
                                Source for database merge of

                                Source for merge of: Sema-5c CG5661

                                (Butler, 2000.5.15)

                                Source for merge of: Sema-5c BEST:CK02567

                                (Bayraktaroglu, 2000.11.2)

                                Source for merge of: Sema-5c BG01245

                                (Rollmann et al., 2007)

                                Source for merge of: Sema-5c Sema-3a

                                (FlyBase, 1992-)
                                Additional comments

                                "Sema-3a" was originally reported in an EDRC abstract (FBrf0109280 and FBrf0125077). A subsequent paper by the same authors (FBrf0137217) indicates that this is the same gene as "Sema-5c" (CG5661).

                                (FlyBase, 1992-)
                                Nomenclature History
                                Source for database identify of

                                Source for identity of: Sema5c Sema-5c

                                (FlyBase, 2009-)
                                Nomenclature comments
                                Etymology
                                Synonyms and Secondary IDs (24)
                                Reported As
                                Symbol Synonym
                                BEST:CK02567
                                BG01245
                                (Sambandan et al., 2006)
                                CG5661
                                (Perkins et al., 2009, Seong et al., 2001, Butler, 2000.5.15)
                                CK02567
                                (Kopczynski et al., 1998)
                                CT17880
                                (Hynes and Zhao, 2000)
                                Dsema3a
                                (Bahri, 2000.2.3, Bahri and Chia, 1999)
                                Sema 5c
                                (Bahri et al., 2001, Seong et al., 2001)
                                Sema-3a
                                Sema-5
                                (Popkova et al., 2021)
                                Sema-5C
                                (Loganathan et al., 2016, Southall and Brand, 2009, Harbison and Sehgal, 2008)
                                Sema-5c
                                (Geigges et al., 2020, Stedden et al., 2019, Wolfram et al., 2014, Marinho et al., 2013, Shen et al., 2013, Japanese National Institute of Genetics, 2012.5.21, Shin and Diantonio, 2011, Hou et al., 2009, Yamamoto et al., 2009, Yamamoto et al., 2008, Peng et al., 2007, Rollmann et al., 2007, Sambandan et al., 2006)
                                Sema3A
                                (Castellani and Rougon, 2002)
                                Sema5c
                                (Bustillo et al., 2024, Hersperger et al., 2024, Marcogliese et al., 2022, Everetts et al., 2021, Yanagawa et al., 2020, Dominguez et al., 2016, Gene Disruption Project members, 2016-)
                                sema 5c
                                (Khare, 1999.10.25)
                                sema-5C
                                (Loganathan et al., 2016)
                                sema-5c
                                (Reiter et al., 2001)
                                sema5c
                                (Yoo et al., 2016)
                                Name Synonyms
                                Sema-3a
                                Sema-5c
                                Semaphorin
                                (Zoller and Schulz, 2012, Banyai and Patthy, 2004)
                                Semaphorin 5C
                                (Sambandan et al., 2008)
                                Semaphorin 5c
                                (Roberto and Emery, 2022)
                                Semaphorin-5c
                                (Marinho et al., 2013, Rollmann et al., 2007)
                                semaphorin
                                (Dudu et al., 2004, Hughes and Salinas, 1999)
                                semaphorin 5C
                                (Khare, 1999.10.25)
                                semiphorin
                                (Ackley and Jin, 2004)
                                Secondary FlyBase IDs
                                • FBgn0250876
                                • FBgn0028679
                                • FBgn0025685
                                • FBgn0036245
                                • FBgn0086382
                                • FBgn0028404
                                Datasets (0)
                                Study focus (0)
                                Experimental Role
                                Project
                                Project Type
                                Title
                                Study result (0)
                                Result
                                Result Type
                                Title
                                External Crossreferences and Linkouts ( 38 )
                                Sequence Crossreferences
                                NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
                                GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
                                GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
                                RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
                                UniProt/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.
                                UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
                                Other crossreferences
                                AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.
                                DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
                                EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
                                FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
                                InterPro - A database of protein families, domains and functional sites
                                KEGG Genes - Molecular building blocks of life in the genomic space.
                                MARRVEL_MODEL - MARRVEL (model organism gene)
                                Linkouts
                                Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
                                FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
                                iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
                                Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
                                References (89)