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Protein

Nuclear receptor subfamily 2 group F member 1-A

Gene

nr2f1a

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Putative transcription factor that is required in photoreceptor cells precursors during eye development.1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi73 – 14876Nuclear receptorPROSITE-ProRule annotationAdd
BLAST
Zinc fingeri76 – 9621NR C4-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri112 – 13625NR C4-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

  • endothelial cell proliferation Source: ZFIN
  • transcription, DNA-templated Source: UniProtKB-KW
  • vasculature development Source: ZFIN
Complete GO annotation...

Keywords - Molecular functioni

Receptor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-DRE-383280. Nuclear Receptor transcription pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
Nuclear receptor subfamily 2 group F member 1-A
Alternative name(s):
COUP transcription factor 1-A
Short name:
COUP-TFalpha-A
Short name:
zCOUP-TFI
Seven-up related 44
Short name:
Svp[44]
Short name:
zSvp[44]
Steroid receptor homolog SVP 44
Gene namesi
Name:nr2f1a
Synonyms:nr2f1, svp44
ORF Names:si:dkeyp-10a3.1
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
Proteomesi
  • UP000000437 Componenti: Chromosome 5

Organism-specific databases

ZFINiZDB-GENE-980526-115. nr2f1a.

Subcellular locationi

  • Nucleus PROSITE-ProRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 411411Nuclear receptor subfamily 2 group F member 1-APRO_0000053604Add
BLAST

Proteomic databases

PaxDbiQ06725.

Expressioni

Tissue specificityi

First expressed in 11-12 hour embryos. In the rostral brain of 13 hour embryos, expressed within the anterior half of the midbrain and the posterior part of the diencephalon. In the presumptive hindbrain, expressed in a segment-like stripe in the anterior region, resembling the presumptive rhombomere units of the hindbrain. Also detected in the intermediate mesoderm, posterior to the first somite. As somitogenesis proceeds, expression extends posteriorly and flanks the 10 most anterior somites. Expression changes extensively both in level and expansion of domains between 13 and 20 hours. In the rostral brain, expression extends to include a major part of the diencephalon and a caudal portion of the telencephalon. Within the hindbrain, strongly expressed in the two most anterior rhombomeres, and a lower but uniform expression is seen to extend throughout rhombomere 7. In 28 hour embryos, higher and more uniform expression is seen in both rostral and hindbrain areas. Also expressed in the retina of the eye.3 Publications

Gene expression databases

BgeeiENSDARG00000052695.

Interactioni

Protein-protein interaction databases

STRINGi7955.ENSDARP00000051262.

Structurei

3D structure databases

ProteinModelPortaliQ06725.
SMRiQ06725. Positions 74-154.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Contains 1 nuclear receptor DNA-binding domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri76 – 9621NR C4-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri112 – 13625NR C4-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG3575. Eukaryota.
ENOG410XRZC. LUCA.
GeneTreeiENSGT00760000118948.
HOGENOMiHOG000260820.
HOVERGENiHBG005606.
InParanoidiQ06725.
KOiK08547.
OMAiGDKGQSQ.
OrthoDBiEOG091G0YX6.
PhylomeDBiQ06725.
TreeFamiTF352097.

Family and domain databases

Gene3Di1.10.565.10. 1 hit.
3.30.50.10. 1 hit.
InterProiIPR003068. COUP_TF.
IPR000536. Nucl_hrmn_rcpt_lig-bd.
IPR001723. Nuclear_hrmn_rcpt.
IPR001628. Znf_hrmn_rcpt.
IPR013088. Znf_NHR/GATA.
[Graphical view]
PfamiPF00104. Hormone_recep. 1 hit.
PF00105. zf-C4. 1 hit.
[Graphical view]
PRINTSiPR01282. COUPTNFACTOR.
PR00398. STRDHORMONER.
PR00047. STROIDFINGER.
SMARTiSM00430. HOLI. 1 hit.
SM00399. ZnF_C4. 1 hit.
[Graphical view]
SUPFAMiSSF48508. SSF48508. 1 hit.
PROSITEiPS00031. NUCLEAR_REC_DBD_1. 1 hit.
PS51030. NUCLEAR_REC_DBD_2. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q06725-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MAMVVSVWRD PQEDVAGGPP SGPNPAAQPA REQQQAASAA PHTPQTPSQP
60 70 80 90 100
GPPSTPGTAG DKGSQNSGQS QQHIECVVCG DKSSGKHYGQ FTCEGCKSFF
110 120 130 140 150
KRSVRRNLTY TCRANRNCPI DQHHRNQCQY CRLKKCLKVG MRREAVQRGR
160 170 180 190 200
MPPTQPNPGQ YALTNGDPLN GHCYLSGYIS LLLRAEPYPT SRYGSQCMQP
210 220 230 240 250
NNIMGIENIC ELAARLLFSA VEWARNIPFF PDLQITDQVS LLRLTWSELF
260 270 280 290 300
VLNAAQCSMP LHVAPLLAAA GLHASPMSAD RVVAFMDHIR IFQEQVEKLK
310 320 330 340 350
ALHVDSAEYS CIKAIVLFTS DACGLSDAAH IESLQEKSQC ALEEYVRSQY
360 370 380 390 400
PNQPSRFGKL LLRLPSLRTV SSSVIEQLFF VRLVGKTPIE TLIRDMLLSG
410
SSFNWPYMSI Q
Length:411
Mass (Da):45,482
Last modified:November 1, 1996 - v1
Checksum:iB0405FB4AEFA0202
GO
Isoform 2 (identifier: Q06725-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     145-145: Missing.

Note: No experimental confirmation available.
Show »
Length:410
Mass (Da):45,411
Checksum:iE2FCFE4F238C947A
GO
Isoform 3 (identifier: Q06725-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     144-144: Missing.

Note: No experimental confirmation available.
Show »
Length:410
Mass (Da):45,353
Checksum:i56FCFF1B678C9603
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti98 – 981S → C in AAB68740 (PubMed:9192646).Curated
Sequence conflicti132 – 1321R → S in AAB68740 (PubMed:9192646).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei144 – 1441Missing in isoform 3. CuratedVSP_036605
Alternative sequencei145 – 1451Missing in isoform 2. 1 PublicationVSP_036606

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X70299 mRNA. Translation: CAA49780.1.
CR751602 Genomic DNA. Translation: CAM16573.1.
BC056574 mRNA. Translation: AAH56574.1.
BC066671 mRNA. Translation: AAH66671.1.
U93463 Genomic DNA. Translation: AAB68740.1.
PIRiS35333.
RefSeqiNP_571255.1. NM_131180.1. [Q06725-1]
XP_005165564.1. XM_005165507.2. [Q06725-2]
UniGeneiDr.16.

Genome annotation databases

EnsembliENSDART00000133384; ENSDARP00000116750; ENSDARG00000052695. [Q06725-1]
GeneIDi30418.
KEGGidre:30418.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X70299 mRNA. Translation: CAA49780.1.
CR751602 Genomic DNA. Translation: CAM16573.1.
BC056574 mRNA. Translation: AAH56574.1.
BC066671 mRNA. Translation: AAH66671.1.
U93463 Genomic DNA. Translation: AAB68740.1.
PIRiS35333.
RefSeqiNP_571255.1. NM_131180.1. [Q06725-1]
XP_005165564.1. XM_005165507.2. [Q06725-2]
UniGeneiDr.16.

3D structure databases

ProteinModelPortaliQ06725.
SMRiQ06725. Positions 74-154.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi7955.ENSDARP00000051262.

Proteomic databases

PaxDbiQ06725.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSDART00000133384; ENSDARP00000116750; ENSDARG00000052695. [Q06725-1]
GeneIDi30418.
KEGGidre:30418.

Organism-specific databases

CTDi30418.
ZFINiZDB-GENE-980526-115. nr2f1a.

Phylogenomic databases

eggNOGiKOG3575. Eukaryota.
ENOG410XRZC. LUCA.
GeneTreeiENSGT00760000118948.
HOGENOMiHOG000260820.
HOVERGENiHBG005606.
InParanoidiQ06725.
KOiK08547.
OMAiGDKGQSQ.
OrthoDBiEOG091G0YX6.
PhylomeDBiQ06725.
TreeFamiTF352097.

Enzyme and pathway databases

ReactomeiR-DRE-383280. Nuclear Receptor transcription pathway.

Miscellaneous databases

PROiQ06725.

Gene expression databases

BgeeiENSDARG00000052695.

Family and domain databases

Gene3Di1.10.565.10. 1 hit.
3.30.50.10. 1 hit.
InterProiIPR003068. COUP_TF.
IPR000536. Nucl_hrmn_rcpt_lig-bd.
IPR001723. Nuclear_hrmn_rcpt.
IPR001628. Znf_hrmn_rcpt.
IPR013088. Znf_NHR/GATA.
[Graphical view]
PfamiPF00104. Hormone_recep. 1 hit.
PF00105. zf-C4. 1 hit.
[Graphical view]
PRINTSiPR01282. COUPTNFACTOR.
PR00398. STRDHORMONER.
PR00047. STROIDFINGER.
SMARTiSM00430. HOLI. 1 hit.
SM00399. ZnF_C4. 1 hit.
[Graphical view]
SUPFAMiSSF48508. SSF48508. 1 hit.
PROSITEiPS00031. NUCLEAR_REC_DBD_1. 1 hit.
PS51030. NUCLEAR_REC_DBD_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiN2F1A_DANRE
AccessioniPrimary (citable) accession number: Q06725
Secondary accession number(s): A2CEQ1, O42536, Q6PHF2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 15, 1999
Last sequence update: November 1, 1996
Last modified: September 7, 2016
This is version 129 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.