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Q9DE25 (FXC1A_DANRE) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 107. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Forkhead box C1-A
Gene names
Name:foxc1a
Synonyms:foxc1.1
OrganismDanio rerio (Zebrafish) (Brachydanio rerio) [Reference proteome]
Taxonomic identifier7955 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio

Protein attributes

Sequence length476 AA.
Sequence statusComplete.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

Transcriptional regulator. Required for cell viability and resistance to oxidative stress in the eye through regulation of FOXO1A.

Subcellular location

Nucleus Probable.

Developmental stage

First detected at the shield stage of gastrulation in the involuting mesendoderm with levels being highest in the paraxial mesoderm and decline laterally to become undetectable in the ventral mesoderm. Expression spreads in the hypoblast towards the animal pole and converges dorsally. At the tail bud stage (9.5 hpf), transcripts are seen in adaxial cells flanking the future notochord and in the presomitic mesoderm (PSM). During early somitogenesis, expression also extends into the future head, in two stripes continuous with the adaxial cells. Expression continues around the developing eye, presomitic mesoderm (PSM), trunk adaxial cells and somites. In late somatogenesis, expression in the presumptive pronephric primodia lateral to the second and third somite. In the early pharyngula stage, expressed in the perioptic mesoderm. Expression continues in the PSM and adaxial cells in the tail. Ref.1

Sequence similarities

Contains 1 fork-head DNA-binding domain.

Ontologies

Keywords
   Biological processTranscription
Transcription regulation
   Cellular componentNucleus
   LigandDNA-binding
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processNotch signaling pathway

Inferred from Biological aspect of Ancestor. Source: RefGenome

adrenal gland development

Inferred from genetic interaction PubMed 21871448. Source: ZFIN

blood vessel development

Inferred from genetic interaction PubMed 19458328. Source: ZFIN

camera-type eye development

Inferred from genetic interaction PubMed 17000708PubMed 19458328. Source: ZFIN

closure of optic fissure

Inferred from mutant phenotype PubMed 21555593. Source: ZFIN

glomerular visceral epithelial cell fate commitment

Inferred from genetic interaction PubMed 21871448. Source: ZFIN

negative regulation of apoptotic process

Inferred from Biological aspect of Ancestor. Source: RefGenome

negative regulation of transcription from RNA polymerase II promoter

Inferred from Biological aspect of Ancestor. Source: RefGenome

positive regulation of transcription from RNA polymerase II promoter

Inferred from Biological aspect of Ancestor. Source: RefGenome

pronephric glomerulus development

Inferred from genetic interaction PubMed 21871448. Source: ZFIN

regulation of organ growth

Inferred from Biological aspect of Ancestor. Source: RefGenome

regulation of sequence-specific DNA binding transcription factor activity

Inferred from Biological aspect of Ancestor. Source: RefGenome

regulation of vascular permeability

Inferred from genetic interaction PubMed 21282189. Source: ZFIN

somitogenesis

Inferred from mutant phenotype PubMed 11562356. Source: ZFIN

transcription from RNA polymerase II promoter

Inferred from Biological aspect of Ancestor. Source: GOC

vascular endothelial growth factor receptor signaling pathway

Inferred from Biological aspect of Ancestor. Source: RefGenome

vasculature development

Inferred from mutant phenotype PubMed 19070576. Source: ZFIN

   Cellular_componentnucleus

Inferred from electronic annotation. Source: UniProtKB-SubCell

transcription factor complex

Inferred from Biological aspect of Ancestor. Source: RefGenome

   Molecular_functionDNA binding, bending

Inferred from Biological aspect of Ancestor. Source: RefGenome

RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity

Inferred from Biological aspect of Ancestor. Source: RefGenome

chromatin DNA binding

Inferred from Biological aspect of Ancestor. Source: RefGenome

double-stranded DNA binding

Inferred from Biological aspect of Ancestor. Source: RefGenome

sequence-specific DNA binding

Inferred from electronic annotation. Source: InterPro

transcription factor binding

Inferred from Biological aspect of Ancestor. Source: RefGenome

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 476476Forkhead box C1-A
PRO_0000419248

Regions

DNA binding74 – 16895Fork-head
Compositional bias239 – 33799Ser-rich
Compositional bias377 – 3804Poly-Thr

Sequences

Sequence LengthMass (Da)Tools
Q9DE25 [UniParc].

Last modified March 1, 2001. Version 1.
Checksum: E79BD7030D20B2D0

FASTA47652,173
        10         20         30         40         50         60 
MQARYSVSSP NSLGVVPYIS SDQSYYRAAA GGGYTGMPAP MTMYSHAAHD QYPASMARAY 

        70         80         90        100        110        120 
GPYTPQPQPK DMVKPPYSYI ALITMAIQNS PDKKVTLNGI YQFIMERFPF YRDNKQGWQN 

       130        140        150        160        170        180 
SIRHNLSLNE CFVKVPRDDK KPGKGSYWTL DPDSYNMFEN GSFLRRRRRF KKKDAMKDKE 

       190        200        210        220        230        240 
DRGVKEAPSR QAQPQAREQE QSVPGSQPVR IQDIKTENGT STPPQAVSPT LSTVPKIESP 

       250        260        270        280        290        300 
DSSSSMSSGS PHSIPSTRSL SLDSAGEQHH QAPAQGFSVD NIMTSLRGSP HSSGELTPSL 

       310        320        330        340        350        360 
VAPSRTGITP TLSLNYSPNQ SSVYSSPCSQ NSISTTSNAT YHCNMQAMSL YAGGDRSGHL 

       370        380        390        400        410        420 
GTTATTVDET LPDYSITTTT SSLSHGNLSS AQEGHHPHQG RLASWYLNQA GDIGHLGATY 

       430        440        450        460        470 
PAQQQNFHSV REMFESQRIG LNNSPVNGNN SCQMSFPPSQ PIYRTSGAFV YDCSKF 

« Hide

References

« Hide 'large scale' references
[1]"Sequence and expression of zebrafish foxc1a and foxc1b, encoding conserved forkhead/winged helix transcription factors."
Topczewska J.M., Topczewski J., Solnica-Krezel L., Hogan B.L.
Mech. Dev. 100:343-347(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], DEVELOPMENTAL STAGE.
[2]"The zebrafish reference genome sequence and its relationship to the human genome."
Howe K., Clark M.D., Torroja C.F., Torrance J., Berthelot C., Muffato M., Collins J.E., Humphray S., McLaren K., Matthews L., McLaren S., Sealy I., Caccamo M., Churcher C., Scott C., Barrett J.C., Koch R., Rauch G.J. expand/collapse author list , White S., Chow W., Kilian B., Quintais L.T., Guerra-Assuncao J.A., Zhou Y., Gu Y., Yen J., Vogel J.H., Eyre T., Redmond S., Banerjee R., Chi J., Fu B., Langley E., Maguire S.F., Laird G.K., Lloyd D., Kenyon E., Donaldson S., Sehra H., Almeida-King J., Loveland J., Trevanion S., Jones M., Quail M., Willey D., Hunt A., Burton J., Sims S., McLay K., Plumb B., Davis J., Clee C., Oliver K., Clark R., Riddle C., Eliott D., Threadgold G., Harden G., Ware D., Mortimer B., Kerry G., Heath P., Phillimore B., Tracey A., Corby N., Dunn M., Johnson C., Wood J., Clark S., Pelan S., Griffiths G., Smith M., Glithero R., Howden P., Barker N., Stevens C., Harley J., Holt K., Panagiotidis G., Lovell J., Beasley H., Henderson C., Gordon D., Auger K., Wright D., Collins J., Raisen C., Dyer L., Leung K., Robertson L., Ambridge K., Leongamornlert D., McGuire S., Gilderthorp R., Griffiths C., Manthravadi D., Nichol S., Barker G., Whitehead S., Kay M., Brown J., Murnane C., Gray E., Humphries M., Sycamore N., Barker D., Saunders D., Wallis J., Babbage A., Hammond S., Mashreghi-Mohammadi M., Barr L., Martin S., Wray P., Ellington A., Matthews N., Ellwood M., Woodmansey R., Clark G., Cooper J., Tromans A., Grafham D., Skuce C., Pandian R., Andrews R., Harrison E., Kimberley A., Garnett J., Fosker N., Hall R., Garner P., Kelly D., Bird C., Palmer S., Gehring I., Berger A., Dooley C.M., Ersan-Urun Z., Eser C., Geiger H., Geisler M., Karotki L., Kirn A., Konantz J., Konantz M., Oberlander M., Rudolph-Geiger S., Teucke M., Osoegawa K., Zhu B., Rapp A., Widaa S., Langford C., Yang F., Carter N.P., Harrow J., Ning Z., Herrero J., Searle S.M., Enright A., Geisler R., Plasterk R.H., Lee C., Westerfield M., de Jong P.J., Zon L.I., Postlethwait J.H., Nusslein-Volhard C., Hubbard T.J., Roest Crollius H., Rogers J., Stemple D.L.
Nature 496:498-503(2013) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: Tuebingen.
[3]NIH - Zebrafish Gene Collection (ZGC) project
Submitted (JUN-2003) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Tissue: Embryo.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CU929125 Genomic DNA. No translation available.
AF219949 Genomic DNA. Translation: AAG44241.1.
BC053129 mRNA. Translation: AAH53129.1.
RefSeqNP_571803.1. NM_131728.3.
UniGeneDr.82483.

3D structure databases

ProteinModelPortalQ9DE25.
SMRQ9DE25. Positions 72-164.
ModBaseSearch...
MobiDBSearch...

Proteomic databases

PRIDEQ9DE25.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSDART00000122732; ENSDARP00000105372; ENSDARG00000091481.
GeneID100148408.
KEGGdre:100148408.

Organism-specific databases

CTD100148408.
ZFINZDB-GENE-010302-1. foxc1a.

Phylogenomic databases

GeneTreeENSGT00740000114928.
HOGENOMHOG000007939.
HOVERGENHBG051640.
KOK09396.
OMAYSSPCSQ.
OrthoDBEOG7C8GHD.
PhylomeDBQ9DE25.
TreeFamTF316127.

Gene expression databases

BgeeQ9DE25.

Family and domain databases

Gene3D1.10.10.10. 1 hit.
InterProIPR001766. TF_fork_head.
IPR018122. TF_fork_head_CS.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamPF00250. Fork_head. 1 hit.
[Graphical view]
PRINTSPR00053. FORKHEAD.
SMARTSM00339. FH. 1 hit.
[Graphical view]
PROSITEPS00657. FORK_HEAD_1. 1 hit.
PS00658. FORK_HEAD_2. 1 hit.
PS50039. FORK_HEAD_3. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio20792036.

Entry information

Entry nameFXC1A_DANRE
AccessionPrimary (citable) accession number: Q9DE25
Entry history
Integrated into UniProtKB/Swiss-Prot: October 3, 2012
Last sequence update: March 1, 2001
Last modified: June 11, 2014
This is version 107 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families