FB2020_06, released Dec 22, 2020

Gene: Dmel\stc

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General Information
Symbol
Dmel\stc
Species
D. melanogaster
Name
shuttle craft
Annotation Symbol
CG3647
Feature Type
protein_coding_gene
FlyBase ID
FBgn0001978
Gene Model Status
Current
Stock Availability
10 publicly available
Gene Snapshot
shuttle craft (stc) encodes a zinc finger transcription factor of the NFX1 family. Maternally contributed protein is essential for segmentation. During the late stages of embryonic neurogenesis, zygotically expressed stc product is involved in axon guidance, which is vital for proper muscle innervation. stc expression in the embryo is important for the adult life span and aging. [Date last reviewed: 2018-09-13]
Other Summaries
Also Known As

l(2)35Cb, l(2)br33, br33, BG:DS04929.4

Key Links
Genomic Location
Cytogenetic map
35C2-35C2
Sequence location
2L:15,113,480..15,118,069 [+]
Recombination map

2-51

RefSeq locus
NT_033779 REGION:15113480..15118069
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 (9 terms)
Molecular Function (5 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (5 terms)
CV Term
Evidence
References
enables DNA-binding transcription factor activity, RNA polymerase II-specific
inferred from biological aspect of ancestor with PANTHER:PTN000270822
(assigned by GO_Central )
(Gaudet et al., 2011)
enables DNA-binding transcription factor activity
inferred from sequence or structural similarity with HGNC:7803
(Stroumbakis et al., 1996)
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding
inferred from biological aspect of ancestor with PANTHER:PTN000270822
(assigned by GO_Central )
(Gaudet et al., 2011)
enables ubiquitin protein ligase activity
inferred from sequence or structural similarity with UniProtKB:Q12986
(FlyBase Curators, 2008--)
enables zinc ion binding
inferred from electronic annotation with InterPro:IPR000967, InterPro:IPR001841
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
inferred from sequence model
(Ying et al., 2011)
Biological Process (3 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (3 terms)
CV Term
Evidence
References
involved_in negative regulation of transcription by RNA polymerase II
inferred from biological aspect of ancestor with PANTHER:PTN000270871
(assigned by GO_Central )
(Gaudet et al., 2011)
involved_in protein autoubiquitination
inferred from sequence or structural similarity with UniProtKB:Q12986
(FlyBase Curators, 2008--)
involved_in regulation of transcription, DNA-templated
inferred from biological aspect of ancestor with PANTHER:PTN000270822
(assigned by GO_Central )
(Gaudet et al., 2011)
Cellular Component (1 term)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
located_in nucleus
inferred from direct assay
(Stroumbakis et al., 1996)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
located_in nucleus
inferred from biological aspect of ancestor with PANTHER:PTN000270822
(assigned by GO_Central )
(Gaudet et al., 2011)
Gene Group (FlyBase)
Protein Family (UniProt)
Belongs to the NFX1 family. (P40798)
Protein Signatures (InterPro)
Summaries
Gene Group (FlyBase)
OTHER RING DOMAIN UBIQUITIN LIGASES -
The RING (Really Interesting New Gene) finger domain co-ordinates two Zn2+ ions via conserved Cys and His residues. Most proteins which contain a RING finger are assumed to be ubiquitin (E3) ligases. The RING finger binds ubiquitin-conjugating enzymes (E2) and promotes direct transfer of ubiquitin to the target protein. (Adapted from FBrf0215242 and PMID:19489725).
OTHER DNA BINDING DOMAIN TRANSCRIPTION FACTORS -
The Other DNA binding domain transcription factors group is a collection of DNA-binding transcription factors that do not fit into any of the other major domain-based transcription factor groups.
Protein Function (UniProtKB)
Plays an essential role during the late stages of embryonic neurogenesis. May either fine-tune the guidance or the spatial maintenance of the migrating SNB and in nerve roots, which are composed of axons originating from distinct groups of motor neurons and may be required to either guide or maintain the position of these nerves along a direct and straight path to their ultimate targets in particular muscle fields. May play a role in egg chamber development and/or may confer essential maternal contributions to the early embryo.
(UniProt, P40798)
Phenotypic Description (Red Book; Lindsley and Zimm 1992)
l(2)35Cb
l(2)35Cb1 escapes in heterozygous combination with Df(2L)Sco4, but not with other l(2)35Cb deficiencies.
Summary (Interactive Fly)

zinc finger, C4HC3 type (PHD finger), and RD-domain protein - maternal mutants exhibit defects in segmentation, while zygotic mutants show defects in axon guidance

Gene Model and Products
Number of Transcripts
4
Number of Unique Polypeptides
4

Please see the JBrowse view of Dmel\stc 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

Low-frequency RNA-Seq exon junction(s) not annotated.

Gene model reviewed during 5.45

Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
stc-RA
FBtr0080706
NM_057250
4124
1099
stc-RB
FBtr0080705
NM_057251
4145
1106
stc-RC
FBtr0332473
NM_001273531
4112
1095
stc-RD
FBtr0332474
NM_001273532
4133
1102
Additional Transcript Data and Comments
Reported size (kB)

4.0 (northern blot)

(Stroumbakis et al., 1996)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank
stc-PA
FBpp0080266
122.4
1099
8.34
NP_476598
AAN10891
stc-PB
FBpp0080265
123.2
1106
8.34
NP_476599
AAF53441
stc-PC
FBpp0304749
121.9
1095
8.34
NP_001260460
AGB92995
stc-PD
FBpp0304750
122.7
1102
8.34
NP_001260461
AGB92996
Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments
Reported size (kDa)

1106, 1099 (aa); 123 (kD predicted)

(Stroumbakis et al., 1996)
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\stc 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
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 1 -- 3
organism

Comment: maternally deposited

(Fisher et al., 2012)
embryonic stage 4 -- 6
organism | ubiquitous
(Fisher et al., 2012)
primordial germ cell
(Fisher et al., 2012)
embryonic stage 7 -- 8
organism | ubiquitous
(Fisher et al., 2012)
primordial germ cell
(Fisher et al., 2012)
embryonic stage 9 -- 10
germline cell
(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 11 -- 12
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 13 -- 16
organism | ubiquitous
(Fisher et al., 2012)
northern blot
Stage
Tissue/Position (including subcellular localization)
Reference
oogenesis & adult stage | female
ovary
(Stroumbakis et al., 1996)
embryonic stage -- adult stage
(Stroumbakis et al., 1996)
Additional Descriptive Data

stc transcripts are detected throughout development on northern blots. They are most abundant in adult males and in ovaries.

(Stroumbakis et al., 1996)
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
immunolocalization
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 13 -- 17
embryonic/larval brain | restricted
(Stroumbakis et al., 1996)
presumptive embryonic/larval central nervous system | restricted
(Stroumbakis et al., 1996)
Additional Descriptive Data

stc protein was detected in the central nervous system of stage 13-17 embryos. It is prominent in repeated clusters of cells in each neuromere along the length of the ventral nerve cord and in distinct groups of cells within the brain lobes.

(Stroumbakis et al., 1996)
Marker for
 
Subcellular Localization
CV Term
Evidence
References
located_in nucleus
inferred from direct assay
(Stroumbakis et al., 1996)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\stc 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
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 13 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 4 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of stc
Transgenic constructs containing regulatory region of stc
Deletions and Duplications ( 166 )
Disrupted in
Df(2L)A48
(Cai et al., 2001, Spradling et al., 1999, Fossett et al., 1994, Grau et al., 1984, Ashburner et al., 1982, Ashburner et al., 1982)
Df(2L)A72
(Roote et al., 1996, Fossett et al., 1994, Ashburner et al., 1990, Ashburner et al., 1982, Ashburner et al., 1982)
Df(2L)A215
(Fossett et al., 1994, Ashburner et al., 1982)
Df(2L)A220
(Roote et al., 1996, Fossett et al., 1994, Ashburner et al., 1982)
Df(2L)A246
(Fossett et al., 1994, Ashburner et al., 1982)
Df(2L)A263
(Furukawa et al., 1992, Ashburner et al., 1982)
Df(2L)A264
(Fossett et al., 1994, Ashburner et al., 1982)
Df(2L)A337
(Fossett et al., 1994)
Df(2L)A376
(Fossett et al., 1994, Ashburner, 1982, Ashburner et al., 1982)
Df(2L)A377
(Ashburner, 1982, Ashburner et al., 1982)
Df(2L)A400
(Roote et al., 1996, Fossett et al., 1994, Ashburner, 1982, Ashburner et al., 1982)
Df(2L)Adh-nBR55
(Roote, 1995.3.24)
Df(2L)Adh-nBR101
(Fossett et al., 1994)
Df(2L)Adh-nBR102
(Fossett et al., 1994)
Df(2L)Adh-nBR103
(Fossett et al., 1994)
Df(2L)Adh-nBR105
(Roote, 1996.1.11, Roote, 1996.8, Roote et al., 1996, Fossett et al., 1994)
Df(2L)Adh-nBR118
(Fossett et al., 1994)
Df(2L)Adh-nBR120
(Fossett et al., 1994)
Df(2L)Adh-nBR122
(Roote, 1996.1.11, Roote, 1996.8, Roote et al., 1996, Fossett et al., 1994)
Df(2L)Adh-nBR125
(Fossett et al., 1994)
Df(2L)Adh-nBR126
(Fossett et al., 1994)
Df(2L)Adh-nBR128
(Roote, 1996.1.11, Roote, 1996.8, Roote et al., 1996, Fossett et al., 1994)
Df(2L)Adh-nBR129
(Fossett et al., 1994)
Df(2L)Adh-nBR130
(Fossett et al., 1994)
Df(2L)Adh-nBR131
(Roote, 1996.1.11, Roote, 1996.8, Fossett et al., 1994)
Df(2L)b80e4
(Ashburner et al., 1990)
Df(2L)b84h50
(Roote, 1996.8, Furukawa et al., 1992)
Df(2L)b88c58
(Roote, 1996.8, Alexandrov and Alexandrova, 1991)
Df(2L)do1
(Ashburner, 1982)
Df(2L)ED1050
(Roote, 2004.6.24)
Df(2L)el20
(Ashburner et al., 1990)
Df(2L)el28
(Furukawa et al., 1992, Ashburner et al., 1990)
Df(2L)el80f1
(Ashburner et al., 1983)
Df(2L)Exel7062
(Ryder, 2004.4.26)
Df(2L)fn1
(Grau et al., 1984, Ashburner et al., 1982, Ashburner et al., 1982)
Df(2L)fn5
(Furukawa et al., 1992, Ashburner et al., 1982)
Df(2L)fn26
(Ashburner et al., 1990, Ashburner et al., 1982)
Df(2L)fn27
(Ashburner et al., 1990, Ashburner, 1982, Ashburner et al., 1982, Ashburner et al., 1982)
Df(2L)k05007-mr19
(Roote, 2000.6.13)
Df(2L)k09033-mr19
(Roote, 2000.6.13)
Df(2L)n78l3
(Ashburner et al., 1990, Ashburner et al., 1982)
Df(2L)nNxF1
(Roote, 1996.8, Roote et al., 1996)
Df(2L)nNxF2
(Roote et al., 1996)
Df(2L)noc11
(Ashburner et al., 1990)
Df(2L)osp29
(Cai et al., 2001, Furukawa et al., 1992, Grau et al., 1984, Ashburner et al., 1982)
Df(2L)osp38
(Ashburner et al., 1990)
Df(2L)Sco7
(Ashburner et al., 1990, Ashburner et al., 1983)
Df(2L)Scorv4
(Roote et al., 1996, Ashburner et al., 1990, Ashburner et al., 1983)
Df(2L)Scorv23
(Grau et al., 1984, Ashburner et al., 1983, Ashburner, 1982)
Df(2L)TE35B-1
(Gubb et al., 1985)
Df(2L)TE35B-2
(Gubb et al., 1985)
Df(2L)TE35B-5
(Roote, 1996.8, Gubb et al., 1985)
Df(2L)TE35B-6
(Roote et al., 1996, Gubb et al., 1985)
Df(2L)TE35BC-3
(Cai et al., 2001, Ashburner et al., 1990, Grau et al., 1984, Gubb et al., 1984, Ashburner, 1982, Ashburner et al., 1982)
Df(2L)TE35BC-4
(Ashburner et al., 1990, Gubb et al., 1984, Ashburner, 1982, Ashburner et al., 1982)
Df(2L)TE35BC-6
(Gubb et al., 1984)
Df(2L)TE35BC-8
(Gubb et al., 1984)
Df(2L)TE35BC-24
(Zhu et al., 2005, Gubb et al., 1984)
Df(2L)TE35BC-34
(Ashburner et al., 1990, Gubb et al., 1984)
Df(2L)TE35BC-35
(Gubb et al., 1984)
Df(2L)TE35D-4
(Roote, 1997.6.6, Stroumbakis et al., 1996, Ashburner et al., 1990)
Df(2L)TE35D-16
(Ashburner et al., 1990)
Df(2L)TE35D-18
(Furukawa et al., 1992)
Df(2L)TE35D-20
(Ashburner et al., 1990)
Df(2L)TE35D-23
(Ashburner et al., 1990)
In(2L)75c
(Grau et al., 1984, Ashburner, 1982)
In(2L)C158LScorv11R
(Ashburner and Harrington, 1984, Ashburner et al., 1983)
In(2L)C158LScorv17R
(Ashburner and Harrington, 1984, Ashburner et al., 1983)
In(2L)dpps22Ldppd36R
(Ashburner et al., 1990)
In(2L)el18
(Ashburner et al., 1990)
In(2L)TE35B-13
(Gubb et al., 1985)
In(2LR)noc4LScorv9R
(Cai et al., 2001, Ashburner and Harrington, 1984)
In(2LR)pkD1-rv8
(Roote, 1997.6.6)
In(2LR)TE35B-6LScorv9R
(Ashburner and Harrington, 1984)
Tp(2;2)A446
(Fossett et al., 1994, Ashburner et al., 1982, Ashburner et al., 1982)
Ts(2Lt;3Lt)TE35B-4+Ts(2Rt;3Rt)Scorv13
(Ashburner and Harrington, 1984)
Ts(2Lt;3Lt)TE35BC-3+Ts(2Rt;3Rt)Scorv13
(Ashburner and Harrington, 1984, Ashburner et al., 1983)
Partially disrupted in
Df(2L)Scorv4
(Ashburner et al., 1999.10.12)
Not disrupted in
Df(2L)64j
(Furukawa et al., 1992, Ashburner et al., 1990, Ashburner, 1982)
Df(2L)A47
(Fossett et al., 1994, Ashburner et al., 1982)
Df(2L)A63
(Fossett et al., 1994, Ashburner et al., 1982, Ashburner et al., 1982)
Df(2L)A178
(Fossett et al., 1994, Ashburner et al., 1982, Ashburner et al., 1982)
Df(2L)A217
(Fossett et al., 1994, Ashburner et al., 1982)
Df(2L)A245
(Fossett et al., 1994, Ashburner et al., 1982)
Df(2L)A260
(Ashburner et al., 1982)
Df(2L)A266
(Fossett et al., 1994, Ashburner et al., 1982, Ashburner et al., 1982)
Df(2L)A267
(Fossett et al., 1994, Ashburner et al., 1990, Lasko and Ashburner, 1988, Ashburner et al., 1982, Ashburner et al., 1982)
Df(2L)A379
(Fossett et al., 1994, Ashburner et al., 1982, Ashburner et al., 1982)
Df(2L)A400
(Ashburner et al., 1982)
Df(2L)A445
(Fossett et al., 1994, Ashburner et al., 1982)
Df(2L)Adh-nBR100
(Fossett et al., 1994)
Df(2L)Adh-nBR106
(Fossett et al., 1994)
Df(2L)Adh-nBR107
(Fossett et al., 1994)
Df(2L)Adh-nBR117
(Fossett et al., 1994)
Df(2L)Adh-nBR119
(Fossett et al., 1994)
Df(2L)Adh-nBR121
(Fossett et al., 1994)
Df(2L)Adh-nBR127
(Fossett et al., 1994)
Df(2L)ARR1
(Furukawa et al., 1992, Ashburner et al., 1990, Ashburner, 1982)
Df(2L)b80e3
(Ashburner et al., 1982)
Df(2L)b81a1
(Ashburner et al., 1982)
Df(2L)b84a3
(Furukawa et al., 1992)
Df(2L)b84a7
(Furukawa et al., 1992)
Df(2L)b87e25
(Zhu et al., 2005, Roote, 1996.8)
Df(2L)b89e80a
(Roote, 2000.7.3)
Df(2L)fn2
(Grau et al., 1984, Ashburner et al., 1982, Ashburner et al., 1982)
Df(2L)fn3
(Ashburner, 1982, Ashburner et al., 1982)
Df(2L)fn7
(Ashburner, 1982, Ashburner et al., 1982)
Df(2L)fn12
(Ashburner et al., 1990, Ashburner et al., 1982)
Df(2L)fn15
(Ashburner et al., 1982)
Df(2L)fn30
(Ashburner et al., 1982)
Df(2L)fn31
(Ashburner, 1982, Ashburner et al., 1982)
Df(2L)fn36
(Ashburner et al., 1982)
Df(2L)H20
(Ashburner et al., 1990)
Df(2L)osp144
(Ashburner et al., 1982)
Df(2L)PA4
(Ashburner et al., 1983)
Df(2L)PZ07130-mr2
(Roote, 2000.6.13)
Df(2L)PZ07130-mr7
(Roote, 2000.6.13)
Df(2L)r10
(Zhu et al., 2005, Ashburner et al., 1990)
Df(2L)RA5
(Ashburner et al., 1990)
Df(2L)rd9
(Zhu et al., 2005, Roote, 1996.8, Furukawa et al., 1992, Ashburner et al., 1990)
Df(2L)RM5
(Ashburner et al., 1990)
Df(2L)RN2
(Ashburner et al., 1990)
Df(2L)Sco-1
(Ashburner, 1982)
Df(2L)Scorv10
(Grau et al., 1984, Ashburner et al., 1983)
Df(2L)Scorv14
(Ashburner et al., 1983)
Df(2L)Scorv16
(Ashburner et al., 1990, Grau et al., 1984, Ashburner et al., 1983)
Df(2L)Scorv18
(Ashburner et al., 1990, Ashburner et al., 1983)
Df(2L)Scorv19
(Ashburner et al., 1990, Grau et al., 1984, Ashburner et al., 1983)
Df(2L)Scorv25
(Ashburner et al., 1990, Grau et al., 1984, Ashburner et al., 1983)
Df(2L)SS1
(Ashburner et al., 1990, Grau et al., 1984)
Df(2L)TE35B-3
(Gubb et al., 1985)
Df(2L)TE35B-4
(Gubb et al., 1985)
Df(2L)TE35B-5
(Lasko and Ashburner, 1988)
Df(2L)TE35B-7
(Gubb et al., 1985)
Df(2L)TE35B-8
(Gubb et al., 1985)
Df(2L)TE35B-9
(Gubb et al., 1985)
Df(2L)TE35B-10
(Gubb et al., 1985)
Df(2L)TE35B-11
(Gubb et al., 1985)
Df(2L)TE35B-12
(Gubb et al., 1985)
Df(2L)TE35B-15
(Gubb et al., 1985)
Df(2L)TE35BC-1
(Gubb et al., 1984, Ashburner, 1982)
Df(2L)TE35BC-7
(Furukawa et al., 1992, Gubb et al., 1984)
Df(2L)TE35BC-23
(Gubb et al., 1984)
Df(2L)TE35BC-28
(Furukawa et al., 1992, Gubb et al., 1984)
Df(2L)TE35BC-29
(Gubb et al., 1984)
Df(2L)TE35BC-31
(Gubb et al., 1984)
Df(2L)TE35D-1
(Ashburner et al., 1990)
Df(2L)TE35D-2
(Furukawa et al., 1992, Ashburner et al., 1990)
Df(2L)TE35D-3
(Ashburner et al., 1990)
Df(2L)TE35D-6
(Stroumbakis et al., 1996, Furukawa et al., 1992, Ashburner et al., 1990)
Df(2L)TE35D-13
(Furukawa et al., 1992, Ashburner et al., 1990)
Df(2L)TE35D-14
(Ashburner et al., 1990)
Df(2L)TE35D-15
(Furukawa et al., 1992, Ashburner et al., 1990)
Df(2L)TE35D-19
(Ashburner et al., 1990)
Df(2L)TE35D-21
(Ashburner et al., 1990)
Df(2L)TE35D-22
(Cai et al., 2001, Ashburner et al., 1990)
Df(2L)W
(Ashburner et al., 1982)
In(2LR)Scorv1-DV7
(Ashburner et al., 1990)
T(2;3)Scorv7
(Ashburner et al., 1990, Ashburner and Harrington, 1984, Grau et al., 1984, Ashburner et al., 1983)
T(Y;2)A80DR15P
(Ashburner et al., 1982)
Ts(Y;2Lt)el4+Ts(YSt;2Rt)R15
(Ashburner et al., 1982)
Duplicated in
Dp(2;1)Scorv23
(Ashburner et al., 1990, Grau et al., 1984, Ashburner et al., 1983, Ashburner, 1982)
Dp(2;2)GYL
(Ashburner et al., 1990, Ashburner, 1982)
Dp(2;2)GYS
(Ashburner, 1982)
Dp(2;2)TE35B-54L
(Ashburner et al., 1990)
Dp(2;3)osp3
(Ashburner et al., 1990)
In(2L)C163.41LC158R
(Ashburner et al., 1990, Ashburner, 1982)
In(2L)Scorv17LC158R
(Ashburner et al., 1990, Ashburner, 1982)
Not duplicated in
Dp(2;2)Adh3
(Ashburner, 1982)
Phenotypes
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\NFX1
14 of 15
Yes
Yes
Hsap\NFXL1
1 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\Nfx1
14 of 15
Yes
Yes
Mmus\Nfxl1
1 of 15
No
No
Rattus norvegicus (Norway rat) (1)
Rnor\Nfx1
12 of 13
Yes
Yes
Xenopus tropicalis (Western clawed frog) (2)
Xtro\nfx1
8 of 12
Yes
Yes
Xtro\nfxl1
1 of 12
No
No
Danio rerio (Zebrafish) (2)
Drer\si:dkey-10f23.2
12 of 15
Yes
Yes
Drer\nfxl1
1 of 15
No
No
Caenorhabditis elegans (Nematode, roundworm) (1)
Cele\nfx-1
14 of 15
Yes
Yes
Arabidopsis thaliana (thale-cress) (1)
Atha\NFXL1
8 of 9
Yes
Yes
Saccharomyces cerevisiae (Brewer's yeast) (1)
Scer\FAP1
13 of 15
Yes
Yes
Schizosaccharomyces pombe (Fission yeast) (1)
Spom\SPCC18.03
11 of 12
Yes
Yes
Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG091901FL )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00000201
Drosophila simulans
Dsim\GD23996
Drosophila sechellia
Dsec\GM15949
Drosophila erecta
Dere\GG25149
Drosophila yakuba
Dyak\GE20891
Drosophila ananassae
Dana\GF14341
Drosophila pseudoobscura pseudoobscura
Dpse\GA17585
Drosophila persimilis
Dper\GL26033
Drosophila willistoni
Dwil\GK18317
Drosophila virilis
Dvir\GJ11954
Drosophila mojavensis
Dmoj\GI13324
Drosophila grimshawi
Dgri\GH10921
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG0915020D )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17023631
Glossina morsitans
Tsetse fly
Gmor\GMOY005648
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_00482
Mayetiola destructor
Hessian fly
Mdes\Mdes014664
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL001636
Anopheles darlingi
American malaria mosquito
Adar\ADAC001454
Anopheles gambiae
Malaria mosquito
Agam\AGAP008728
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ000861
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W01SD )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bmor\BGIBMGA005634
Danaus plexippus
Monarch butterfly
Dple\DPOGS200341-PA
Heliconius melpomene
Postman butterfly
Hmel\HMEL013483
Heliconius melpomene
Postman butterfly
Hmel\HMEL000050
Apis florea
Little honeybee
Aflo\3091244036
Apis mellifera
Western honey bee
Amel\GB54378
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP10279
Bombus terrestris
Buff-tailed bumblebee
Bter\15212935
Linepithema humile
Argentine ant
Lhum\LH18434
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:00061c
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG022091
Tribolium castaneum
Red flour beetle
Tcas\TC030607
Pediculus humanus
Human body louse
Phum\PHUM136550
Rhodnius prolixus
Kissing bug
Rpro\RPRC013436
Cimex lectularius
Bed bug
Clec\CLEC004640
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI000420
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_04976
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X01Q6 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Smar\SMAR003800
Ixodes scapularis
Black-legged tick
Isca\ISCW024451
Stegodyphus mimosarum
African social velvet spider
Smim\KFM56843.1
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_307023
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G057V )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Nfxl1-2
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Nfxl1
Ciona intestinalis
Vase tunicate
Cint\ENSCING00000004746
Ciona intestinalis
Vase tunicate
Cint\zf(nfx1)
Gallus gallus
Domestic chicken
Ggal\NFXL1
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (1)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
CG15011
3 of 10
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Model Summary Ribbon
    Disease Ontology (DO) Annotations
    Models Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Evidence
    References
    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?
    NFX1; nuclear transcription factor, X-box binding 1
    14 of 15
    603255
        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
        stc - Ada2b
        anti tag coimmunoprecipitation, peptide massfingerprinting
        (Weake et al., 2011)
        stc - drm
        two hybrid array
        (Shokri et al., 2019)
        stc - kel
        proximity-dependent biotin identification, Identification by mass spectrometry
        (Mannix et al., 2019)
        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
        BioGRID - A database of protein and genetic interactions.
        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)
        2L
        Recombination map

        2-51

        Cytogenetic map
        35C2-35C2
        Sequence location
        2L:15,113,480..15,118,069 [+]
        FlyBase Computed Cytological Location
        Cytogenetic map
        Evidence for location
        35C2-35C2
        Limits computationally determined from genome sequence between P{EP}vigEP812&P{PZ}stc05441 and P{EP}esgEP633&P{PZ}esg07082
        Experimentally Determined Cytological Location
        Cytogenetic map
        Notes
        References
        34C4-36A7
        (Oh et al., 2003)
        35C1-35C2
        (determined by in situ hybridisation)
        (Ashburner et al., 1999, Spradling et al., 1999)
        35C-35C
        (determined by in situ hybridisation)
        (Stroumbakis et al., 1996)
        35C1-35C2
        (BDGP Project Members, 1994-1999)
        Experimentally Determined Recombination Data
        Location

        2-51

        (FlyBase, 2016)

        2-47.9

        (Comeron et al., 2012)
        Left of (cM)
        Right of (cM)
        Notes
        Stocks and Reagents
        Stocks (10)
        Genomic Clones (19)
        cDNA Clones (91)
         

        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
           

          polyclonal

          (Stroumbakis et al., 1996)
          Commercially Available Antibodies
           
          Other Information
          Relationship to Other Genes
          Source for database identify of

          Source for identity of: stc CG3647

          (Kodira, 1999.11)
          Source for database merge of

          Source for merge of: stc l(2)SH1565

          (Roote, 2005.1.24)

          Source for merge of: stc BcDNA:LD22726

          (FlyBase, 1996-)
          Additional comments

          Source for merge of stc BcDNA:LD22726 was sequence comparison ( date:990717 ).

          (FlyBase, 1996-)
          Other Comments

          Expression is enriched in embryonic gonads.

          (Shigenobu et al., 2006)

          0 alleles of stc recovered in a P-insertion screen.

          (Oh et al., 2003)

          A maternally derived source of stc protein is required during embryogenesis but not oogenesis.

          (Tolias and Stroumbakis, 1998)

          FlyBase curator comment: Authors state "stc is the sole transcription unit in this region". Subsequent genome annotation identified adjacent CG15269, in which the 05441 insertion FBti0005150 identified with stc05441 (FBal0008509) maps.

          (Stroumbakis et al., 1996)

          Mutants fail to coordinate the contractions required for hatching and die during late embryogenesis.

          (Stroumbakis et al., 1995)

          5 additional alleles are discussed but are not named.

          (Ashburner et al., 1990)
          Origin and Etymology
          Discoverer
          Etymology
          Identification
          External Crossreferences and Linkouts ( 62 )
          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/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
          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
          Flygut - An atlas of the Drosophila adult midgut
          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
          BioGRID - A database of protein and genetic interactions.
          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
          FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
          FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
          FlyMine - An integrated database for Drosophila genomics
          Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
          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 (18)
          Datasets (0)
          Study focus (0)
          Experimental Role
          Project
          Project Type
          Title
          References (113)