FB2020_06, released Dec 22, 2020

Gene: Dmel\Shawn

Open Close
General Information
Symbol
Dmel\Shawn
Species
D. melanogaster
Name
Shawn
Annotation Symbol
CG14209
Feature Type
protein_coding_gene
FlyBase ID
FBgn0031039
Gene Model Status
Current
Stock Availability
2 publicly available
Gene Snapshot
Shawn (Shawn) encodes a mitochondrial carrier involved in metal homeostasis. [Date last reviewed: 2019-09-12]
Other Summaries
Key Links
Genomic Location
Cytogenetic map
18D3-18D3
Sequence location
X:19,611,526..19,615,617 [+]
Recombination map

1-63

RefSeq locus
NC_004354 REGION:19611526..19615617
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
GO Summary Ribbons
Gene Ontology (GO) Annotations (4 terms)
Molecular Function (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
enables transmembrane transporter activity
inferred from sequence model
(Slabbaert et al., 2016)
Biological Process (2 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
involved_in metal ion homeostasis
inferred from mutant phenotype
(Slabbaert et al., 2016)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
involved_in mitochondrial transmembrane transport
inferred from sequence model
(Slabbaert et al., 2016)
Cellular Component (1 term)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
located_in mitochondrion
inferred from direct assay
(Slabbaert et al., 2016)
Terms Based on Predictions or Assertions (0 terms)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Summaries
Gene Group (FlyBase)
SLC25 FAMILY OF MITOCHONDRIAL TRANSPORTERS -
The solute carrier family 25 (SLC25) or mitochondrial carrier family (MCF) members shuttle metabolites, nucleotides and cofactors across the inner mitochondrial membrane. (Adapted from FBrf0212481, FBrf0212949 and PMID:23266187).
Gene Model and Products
Number of Transcripts
4
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\Shawn 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
Comments on Gene Model

Gene model reviewed during 5.49

Gene model reviewed during 5.43

gene_with_dicistronic_mRNA ; SO:0000722

Gene model reviewed during 5.53

Sequence Ontology: Class of Gene
gene_with_dicistronic_mRNA
(FlyBase Genome Annotators, 2002-2003)
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Shawn-RB
FBtr0074737
NM_001031902
2964
387
Shawn-RC
FBtr0074738
NM_001031901
3032
387
Shawn-RD
FBtr0074739
NM_001031900
1618
387
Shawn-RE
FBtr0344069
NM_001298519
3255
387
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
RefSeq ID
GenBank
Shawn-PB
FBpp0074506
42.2
387
9.48
NP_001027073
AAF48981
Shawn-PC
FBpp0074507
42.2
387
9.48
NP_001027072
AAF48982
Shawn-PD
FBpp0074508
42.2
387
9.48
NP_001027071
AAN09511
Shawn-PE
FBpp0310500
42.2
387
9.48
NP_001285448
AHN59918
Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

387 aa isoforms: Shawn-PB, Shawn-PC, Shawn-PD, Shawn-PE
Additional Polypeptide Data and Comments
Reported size (kDa)
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\Shawn 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
Expression Summary Ribbons
Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.
Transcript Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
adult stage
adult head
• membrane
(Aradska et al., 2015)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
located_in mitochondrion
inferred from direct assay
(Slabbaert et al., 2016)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Shawn in GBrowse 2
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
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 3 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 13 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Shawn
Transgenic constructs containing regulatory region of Shawn
Deletions and Duplications ( 8 )
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
lethal - all die during pharate adult stage (with Shawn1)
lethal - all die during pharate adult stage (with Shawn2)
lethal - all die during pharate adult stage (with ShawnΔ6.3)
lethal - all die during P-stage
lethal - all die during P-stage (with Shawn1)
lethal - all die during P-stage (with Shawn2)
Other Phenotypes
Allele
neuroanatomy defective | adult stage | somatic clone
neurophysiology defective | adult stage | somatic clone
neurophysiology defective | third instar larval stage (with Shawn1)
neurophysiology defective | third instar larval stage (with Shawn2)
neurophysiology defective | third instar larval stage (with ShawnΔ6.3)
Phenotype manifest in
Allele
embryonic/larval hypodermal muscle | third instar larval stage (with Shawn1)
embryonic/larval hypodermal muscle | third instar larval stage (with Shawn2)
embryonic/larval neuromuscular junction | third instar larval stage (with Shawn1)
embryonic/larval neuromuscular junction | third instar larval stage (with Shawn2)
embryonic/larval neuromuscular junction | third instar larval stage (with ShawnΔ6.3)
eye | somatic clone
eye photoreceptor cell | somatic clone
mitochondrion | somatic clone
mitochondrion | third instar larval stage
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (2)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Hsap\SLC25A40
9 of 15
Yes
No
1  
Hsap\SLC25A39
8 of 15
No
No
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (2)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Mmus\Slc25a40
9 of 15
Yes
No
Mmus\Slc25a39
8 of 15
No
No
Rattus norvegicus (Norway rat) (3)
Rnor\Slc25a40
8 of 13
Yes
No
Rnor\Slc25a39
7 of 13
No
No
Rnor\Slc25a48
1 of 13
No
No
Xenopus tropicalis (Western clawed frog) (2)
Xtro\slc25a40
8 of 12
Yes
No
Xtro\slc25a39
6 of 12
No
No
Danio rerio (Zebrafish) (2)
Drer\slc25a40
9 of 15
Yes
No
Drer\slc25a39
7 of 15
No
No
Caenorhabditis elegans (Nematode, roundworm) (1)
Cele\C16C10.1
9 of 15
Yes
No
Arabidopsis thaliana (thale-cress) (2)
Atha\AT2G46320
4 of 9
Yes
No
Atha\MTM1
4 of 9
Yes
No
Saccharomyces cerevisiae (Brewer's yeast) (1)
Scer\MTM1
10 of 15
Yes
No
Schizosaccharomyces pombe (Fission yeast) (1)
Spom\SPBP23A10.06
8 of 12
Yes
No
Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG091908WQ )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila simulans
Dsim\GD24876
Drosophila sechellia
Dsec\GM22972
Drosophila erecta
Dere\GG19237
Drosophila yakuba
Dyak\GE15856
Drosophila ananassae
Dana\GF20410
Drosophila pseudoobscura pseudoobscura
Dpse\GA17262
Drosophila persimilis
Dper\GL27057
Drosophila willistoni
Dwil\GK25201
Drosophila virilis
Dvir\GJ15972
Drosophila grimshawi
Dgri\GH24940
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091506OZ )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17023720
Glossina morsitans
Tsetse fly
Gmor\GMOY000498
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_05320
Mayetiola destructor
Hessian fly
Mdes\Mdes003286
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL001329
Anopheles darlingi
American malaria mosquito
Adar\ADAC009405
Anopheles gambiae
Malaria mosquito
Agam\AGAP001297
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ012817
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W0BF9 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bmor\BGIBMGA006241
Danaus plexippus
Monarch butterfly
Dple\DPOGS211565-PA
Heliconius melpomene
Postman butterfly
Hmel\HMEL008039
Apis florea
Little honeybee
Aflo\4402979076
Apis mellifera
Western honey bee
Amel\Ame.3200
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP14268
Bombus terrestris
Buff-tailed bumblebee
Bter\15204327
Linepithema humile
Argentine ant
Lhum\LH23157
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:002e92
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG012242
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_01240
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_03396
Tribolium castaneum
Red flour beetle
Tcas\TC000750
Pediculus humanus
Human body louse
Phum\PHUM103570
Rhodnius prolixus
Kissing bug
Rpro\RPRC011029
Cimex lectularius
Bed bug
Clec\CLEC004053
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI003858
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI007847
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_13090
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0BWR )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Smar\SMAR008502
Ixodes scapularis
Black-legged tick
Isca\ISCW008286
Stegodyphus mimosarum
African social velvet spider
Smim\KFM73595.1
Stegodyphus mimosarum
African social velvet spider
Smim\KFM81683.1
Tetranychus urticae
Two-spotted spider mite
Turt\tetur01g13770
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_219561
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G07QQ )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Mcfp
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Slc25a40
Ciona intestinalis
Vase tunicate
Cint\LOC100179526
Gallus gallus
Domestic chicken
Ggal\SLC25A40
Gallus gallus
Domestic chicken
Ggal\SLC25A39
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (43)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
CG2616
6 of 10
Tyler
3 of 10
Ant2
1 of 10
aralar1
1 of 10
Bmcp
1 of 10
CG1628
1 of 10
CG1907
1 of 10
CG4743
1 of 10
CG4995
1 of 10
CG5254
1 of 10
CG5805
1 of 10
CG6893
1 of 10
CG7514
1 of 10
CG7943
1 of 10
CG8026
1 of 10
CG8323
1 of 10
CG9582
1 of 10
CG16736
1 of 10
CG18324
1 of 10
CG18327
1 of 10
CG18418
1 of 10
colt
1 of 10
Dic1
1 of 10
Dic2
1 of 10
Dic3
1 of 10
Dic4
1 of 10
DPCoAC
1 of 10
GC1
1 of 10
GC2
1 of 10
mfrn
1 of 10
MME1
1 of 10
Mpcp1
1 of 10
Mpcp2
1 of 10
PMP34
1 of 10
Rim2
1 of 10
SCaMC
1 of 10
sea
1 of 10
sesB
1 of 10
Tpc1
1 of 10
Tpc2
1 of 10
Ucp4A
1 of 10
Ucp4B
1 of 10
Ucp4C
1 of 10
Human Disease Associations
FlyBase Human Disease Model Reports
Disease Model Summary Ribbon
Disease Ontology (DO) Annotations
Models Based on Experimental Evidence ( 2 )
Potential Models Based on Orthology ( 0 )
Human Ortholog
Disease
Evidence
References
Modifiers Based on Experimental Evidence ( 0 )
Allele
Disease
Interaction
References
Disease Associations of Human Orthologs (via DIOPT v8.0 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?
SLC25A40; solute carrier family 25 member 40
9 of 15
610821
       
      SLC25A39; solute carrier family 25 member 39
      8 of 15
      610820
          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:
          Select Layout:
          Legend:
          Protein
          RNA
          Selected Interactor(s)
          Interactions Browser
          View in Interactions Browser
          Please see the Physical Interaction reports below for full details
          protein-protein
          Physical Interaction
          Assay
          References
          Shawn - Hsp23
          experimental knowledge based
          (Guruharsha et al., 2011)
          Shawn - Hsp26
          experimental knowledge based
          (Guruharsha et al., 2011)
          Shawn - Hsp60A
          experimental knowledge based
          (Guruharsha et al., 2011)
          Shawn - Swip-1
          experimental knowledge based
          (Guruharsha et al., 2011)
          Shawn - wdb
          experimental knowledge based
          (Guruharsha et al., 2011)
          Summary of Genetic Interactions
          esyN Network Diagram
          Starting gene(s)
          Interaction type
          Interacting gene(s)
          Reference
          Starting gene(s)
          Interaction type
          Interacting gene(s)
          Reference
          External Data
          Linkouts
          DroID - A comprehensive database of gene and protein interactions.
          InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
          MIST (protein-protein) - An integrated Molecular Interaction Database
          Pathways
          Signaling Pathways (FlyBase)
          Metabolic Pathways
          External Data
          Linkouts
          Genomic Location and Detailed Mapping Data
          Chromosome (arm)
          X
          Recombination map

          1-63

          Cytogenetic map
          18D3-18D3
          Sequence location
          X:19,611,526..19,615,617 [+]
          FlyBase Computed Cytological Location
          Cytogenetic map
          Evidence for location
          18D3-18D3
          Limits computationally determined from genome sequence between P{EP}EP1348&P{EP}e(y)3EP1036 and P{EP}Sec61γEP1511
          Experimentally Determined Cytological Location
          Cytogenetic map
          Notes
          References
          Experimentally Determined Recombination Data
          Location

          1-63

          (FlyBase, 2016)

          1-62.4

          (Comeron et al., 2012)
          Left of (cM)
          Right of (cM)
          Notes
          Stocks and Reagents
          Stocks (2)
          Genomic Clones (10)
           

          Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

          cDNA Clones (25)
           

          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 GBrowse 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
          DRSC - Results frm RNAi screens
          GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
          Antibody Information
          Laboratory Generated Antibodies
           
          Commercially Available Antibodies
           
          Other Information
          Relationship to Other Genes
          Source for database identify of

          Source for identity of: Shawn CG14209

          (Smith, 2002.10.14)
          Source for database merge of
          Additional comments

          Dicistronic annotation CG33075 split out into separate annotations for each open reading frame, CG14208 and CG14209, in release 4.2 of the genome annotation. CG14208 corresponds to Tyler and CG14209 corresponds to Shawn.

          (FlyBase Genome Annotators, 2005)

          One or more of the processed transcripts for this gene contain(s) two non-overlapping open reading frames (ORFs). The non-overlapping ORFs are represented by Tyler and Shawn.

          (FlyBase Genome Annotators, 2002-2003)
          Other Comments
          Origin and Etymology
          Discoverer
          Etymology

          The genes of this dicistronic locus seem to encode mitochondrial transporters, so are named "Tyler" and "Shawn" after two energetic, 9 and 11 year old boys adopted by Chris Smith's parents. Name "Shawn" chosen by Chris Smith to mark his contribution to the FlyBase Release 3 annotation project.

          (Smith, 2002.10.14)
          Identification
          External Crossreferences and Linkouts ( 41 )
          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/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
          Other crossreferences
          BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
          Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
          Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
          Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
          GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
          iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
          InterPro - A database of protein families, domains and functional sites
          KEGG Genes - Molecular building blocks of life in the genomic space.
          modMine - A data warehouse for the modENCODE project
          Linkouts
          DPiM - Drosophila Protein interaction map
          DroID - A comprehensive database of gene and protein interactions.
          DRSC - Results frm RNAi screens
          FLIGHT - Cell culture data for RNAi and other high-throughput technologies
          FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
          FlyMine - An integrated database for Drosophila genomics
          InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
          MIST (protein-protein) - An integrated Molecular Interaction Database
          Synonyms and Secondary IDs (6)
          Datasets (0)
          Study focus (0)
          Experimental Role
          Project
          Project Type
          Title
          References (25)