N2F1A_DANRE
ID N2F1A_DANRE Reviewed; 411 AA.
AC Q06725; A2CEQ1; O42536; Q6PHF2;
DT 15-JUL-1999, integrated into UniProtKB/Swiss-Prot.
DT 01-NOV-1996, sequence version 1.
DT 03-AUG-2022, entry version 158.
DE RecName: Full=Nuclear receptor subfamily 2 group F member 1-A;
DE AltName: Full=COUP transcription factor 1-A;
DE Short=COUP-TFalpha-A;
DE Short=zCOUP-TFI;
DE AltName: Full=Seven-up related 44;
DE Short=Svp[44];
DE Short=zSvp[44];
DE AltName: Full=Steroid receptor homolog SVP 44;
GN Name=nr2f1a; Synonyms=nr2f1, svp44; ORFNames=si:dkeyp-10a3.1;
OS Danio rerio (Zebrafish) (Brachydanio rerio).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes;
OC Danionidae; Danioninae; Danio.
OX NCBI_TaxID=7955;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION, AND TISSUE SPECIFICITY.
RC TISSUE=Embryo;
RX PubMed=8467797; DOI=10.1002/j.1460-2075.1993.tb05784.x;
RA Fjose A., Nornes S., Weber U., Mlodzik M.;
RT "Functional conservation of vertebrate seven-up related genes in
RT neurogenesis and eye development.";
RL EMBO J. 12:1403-1414(1993).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=Tuebingen;
RX PubMed=23594743; DOI=10.1038/nature12111;
RA Howe K., Clark M.D., Torroja C.F., Torrance J., Berthelot C., Muffato M.,
RA Collins J.E., Humphray S., McLaren K., Matthews L., McLaren S., Sealy I.,
RA Caccamo M., Churcher C., Scott C., Barrett J.C., Koch R., Rauch G.J.,
RA White S., Chow W., Kilian B., Quintais L.T., Guerra-Assuncao J.A., Zhou Y.,
RA Gu Y., Yen J., Vogel J.H., Eyre T., Redmond S., Banerjee R., Chi J., Fu B.,
RA Langley E., Maguire S.F., Laird G.K., Lloyd D., Kenyon E., Donaldson S.,
RA Sehra H., Almeida-King J., Loveland J., Trevanion S., Jones M., Quail M.,
RA Willey D., Hunt A., Burton J., Sims S., McLay K., Plumb B., Davis J.,
RA Clee C., Oliver K., Clark R., Riddle C., Elliot D., Threadgold G.,
RA Harden G., Ware D., Begum S., Mortimore B., Kerry G., Heath P.,
RA Phillimore B., Tracey A., Corby N., Dunn M., Johnson C., Wood J., Clark S.,
RA Pelan S., Griffiths G., Smith M., Glithero R., Howden P., Barker N.,
RA Lloyd C., Stevens C., Harley J., Holt K., Panagiotidis G., Lovell J.,
RA Beasley H., Henderson C., Gordon D., Auger K., Wright D., Collins J.,
RA Raisen C., Dyer L., Leung K., Robertson L., Ambridge K., Leongamornlert D.,
RA McGuire S., Gilderthorp R., Griffiths C., Manthravadi D., Nichol S.,
RA Barker G., Whitehead S., Kay M., Brown J., Murnane C., Gray E.,
RA Humphries M., Sycamore N., Barker D., Saunders D., Wallis J., Babbage A.,
RA Hammond S., Mashreghi-Mohammadi M., Barr L., Martin S., Wray P.,
RA Ellington A., Matthews N., Ellwood M., Woodmansey R., Clark G., Cooper J.,
RA Tromans A., Grafham D., Skuce C., Pandian R., Andrews R., Harrison E.,
RA Kimberley A., Garnett J., Fosker N., Hall R., Garner P., Kelly D., Bird C.,
RA Palmer S., Gehring I., Berger A., Dooley C.M., Ersan-Urun Z., Eser C.,
RA Geiger H., Geisler M., Karotki L., Kirn A., Konantz J., Konantz M.,
RA Oberlander M., Rudolph-Geiger S., Teucke M., Lanz C., Raddatz G.,
RA Osoegawa K., Zhu B., Rapp A., Widaa S., Langford C., Yang F.,
RA Schuster S.C., Carter N.P., Harrow J., Ning Z., Herrero J., Searle S.M.,
RA Enright A., Geisler R., Plasterk R.H., Lee C., Westerfield M.,
RA de Jong P.J., Zon L.I., Postlethwait J.H., Nusslein-Volhard C.,
RA Hubbard T.J., Roest Crollius H., Rogers J., Stemple D.L.;
RT "The zebrafish reference genome sequence and its relationship to the human
RT genome.";
RL Nature 496:498-503(2013).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
RC TISSUE=Embryo;
RG NIH - Zebrafish Gene Collection (ZGC) project;
RL Submitted (MAR-2004) to the EMBL/GenBank/DDBJ databases.
RN [4]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 94-133.
RX PubMed=9192646; DOI=10.1073/pnas.94.13.6803;
RA Escriva H., Safi R., Haenni C., Langlois M.-C., Saumitou-Laprade P.,
RA Stehelin D., Capron A., Pierce R., Laudet V.;
RT "Ligand binding was acquired during evolution of nuclear receptors.";
RL Proc. Natl. Acad. Sci. U.S.A. 94:6803-6808(1997).
RN [5]
RP TISSUE SPECIFICITY.
RX PubMed=8541212; DOI=10.1016/0925-4773(95)00404-o;
RA Fjose A., Weber U., Mlodzik M.;
RT "A novel vertebrate svp-related nuclear receptor is expressed as a step
RT gradient in developing rhombomeres and is affected by retinoic acid.";
RL Mech. Dev. 52:233-246(1995).
RN [6]
RP TISSUE SPECIFICITY.
RX PubMed=17997606; DOI=10.1371/journal.pgen.0030188;
RA Bertrand S., Thisse B., Tavares R., Sachs L., Chaumot A., Bardet P.-L.,
RA Escriva H., Duffraisse M., Marchand O., Safi R., Thisse C., Laudet V.;
RT "Unexpected novel relational links uncovered by extensive developmental
RT profiling of nuclear receptor expression.";
RL PLoS Genet. 3:E188-E188(2007).
RN [7]
RP REVIEW.
RX PubMed=9101138; DOI=10.1210/edrv.18.2.0294;
RA Tsai S.Y., Tsai M.J.;
RT "Chick ovalbumin upstream promoter-transcription factors (COUP-TFs): coming
RT of age.";
RL Endocr. Rev. 18:229-240(1997).
CC -!- FUNCTION: Putative transcription factor that is required in
CC photoreceptor cells precursors during eye development.
CC {ECO:0000269|PubMed:8467797}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00407}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=3;
CC Name=1;
CC IsoId=Q06725-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q06725-2; Sequence=VSP_036606;
CC Name=3;
CC IsoId=Q06725-3; Sequence=VSP_036605;
CC -!- TISSUE SPECIFICITY: First expressed in 11-12 hour embryos. In the
CC rostral brain of 13 hour embryos, expressed within the anterior half of
CC the midbrain and the posterior part of the diencephalon. In the
CC presumptive hindbrain, expressed in a segment-like stripe in the
CC anterior region, resembling the presumptive rhombomere units of the
CC hindbrain. Also detected in the intermediate mesoderm, posterior to the
CC first somite. As somitogenesis proceeds, expression extends posteriorly
CC and flanks the 10 most anterior somites. Expression changes extensively
CC both in level and expansion of domains between 13 and 20 hours. In the
CC rostral brain, expression extends to include a major part of the
CC diencephalon and a caudal portion of the telencephalon. Within the
CC hindbrain, strongly expressed in the two most anterior rhombomeres, and
CC a lower but uniform expression is seen to extend throughout rhombomere
CC 7. In 28 hour embryos, higher and more uniform expression is seen in
CC both rostral and hindbrain areas. Also expressed in the retina of the
CC eye. {ECO:0000269|PubMed:17997606, ECO:0000269|PubMed:8467797,
CC ECO:0000269|PubMed:8541212}.
CC -!- SIMILARITY: Belongs to the nuclear hormone receptor family. NR2
CC subfamily. {ECO:0000305}.
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DR EMBL; X70299; CAA49780.1; -; mRNA.
DR EMBL; CR751602; CAM16573.1; -; Genomic_DNA.
DR EMBL; BC056574; AAH56574.1; -; mRNA.
DR EMBL; BC066671; AAH66671.1; -; mRNA.
DR EMBL; U93463; AAB68740.1; -; Genomic_DNA.
DR PIR; S35333; S35333.
DR RefSeq; NP_571255.1; NM_131180.1. [Q06725-1]
DR RefSeq; XP_005165564.1; XM_005165507.3. [Q06725-2]
DR AlphaFoldDB; Q06725; -.
DR SMR; Q06725; -.
DR STRING; 7955.ENSDARP00000116750; -.
DR PaxDb; Q06725; -.
DR PRIDE; Q06725; -.
DR Ensembl; ENSDART00000133384; ENSDARP00000116750; ENSDARG00000052695. [Q06725-1]
DR GeneID; 30418; -.
DR KEGG; dre:30418; -.
DR CTD; 30418; -.
DR ZFIN; ZDB-GENE-980526-115; nr2f1a.
DR eggNOG; KOG3575; Eukaryota.
DR GeneTree; ENSGT00940000157876; -.
DR HOGENOM; CLU_007368_20_1_1; -.
DR InParanoid; Q06725; -.
DR OMA; THLIHAE; -.
DR OrthoDB; 666130at2759; -.
DR PhylomeDB; Q06725; -.
DR TreeFam; TF352097; -.
DR Reactome; R-DRE-383280; Nuclear Receptor transcription pathway.
DR PRO; PR:Q06725; -.
DR Proteomes; UP000000437; Genome assembly.
DR Proteomes; UP000814640; Chromosome 5.
DR Bgee; ENSDARG00000052695; Expressed in larva and 70 other tissues.
DR GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR GO; GO:0004879; F:nuclear receptor activity; IBA:GO_Central.
DR GO; GO:0000978; F:RNA polymerase II cis-regulatory region sequence-specific DNA binding; IBA:GO_Central.
DR GO; GO:0008270; F:zinc ion binding; IEA:InterPro.
DR GO; GO:0048856; P:anatomical structure development; IBA:GO_Central.
DR GO; GO:0055011; P:atrial cardiac muscle cell differentiation; IMP:ZFIN.
DR GO; GO:0003209; P:cardiac atrium morphogenesis; IMP:ZFIN.
DR GO; GO:0048738; P:cardiac muscle tissue development; IMP:ZFIN.
DR GO; GO:0030154; P:cell differentiation; IBA:GO_Central.
DR GO; GO:0001935; P:endothelial cell proliferation; IMP:ZFIN.
DR GO; GO:0000122; P:negative regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR GO; GO:0045944; P:positive regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR GO; GO:0006357; P:regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR GO; GO:0001944; P:vasculature development; IMP:ZFIN.
DR Gene3D; 1.10.565.10; -; 1.
DR Gene3D; 3.30.50.10; -; 1.
DR InterPro; IPR035500; NHR-like_dom_sf.
DR InterPro; IPR000536; Nucl_hrmn_rcpt_lig-bd.
DR InterPro; IPR001723; Nuclear_hrmn_rcpt.
DR InterPro; IPR001628; Znf_hrmn_rcpt.
DR InterPro; IPR013088; Znf_NHR/GATA.
DR Pfam; PF00104; Hormone_recep; 1.
DR Pfam; PF00105; zf-C4; 1.
DR PRINTS; PR00398; STRDHORMONER.
DR PRINTS; PR00047; STROIDFINGER.
DR SMART; SM00430; HOLI; 1.
DR SMART; SM00399; ZnF_C4; 1.
DR SUPFAM; SSF48508; SSF48508; 1.
DR PROSITE; PS51843; NR_LBD; 1.
DR PROSITE; PS00031; NUCLEAR_REC_DBD_1; 1.
DR PROSITE; PS51030; NUCLEAR_REC_DBD_2; 1.
PE 2: Evidence at transcript level;
KW Alternative splicing; DNA-binding; Metal-binding; Nucleus; Receptor;
KW Reference proteome; Transcription; Transcription regulation; Zinc;
KW Zinc-finger.
FT CHAIN 1..411
FT /note="Nuclear receptor subfamily 2 group F member 1-A"
FT /id="PRO_0000053604"
FT DOMAIN 174..400
FT /note="NR LBD"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01189"
FT DNA_BIND 73..148
FT /note="Nuclear receptor"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00407"
FT ZN_FING 76..96
FT /note="NR C4-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00407"
FT ZN_FING 112..136
FT /note="NR C4-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00407"
FT REGION 1..68
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 27..44
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 144
FT /note="Missing (in isoform 3)"
FT /evidence="ECO:0000305"
FT /id="VSP_036605"
FT VAR_SEQ 145
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|Ref.3"
FT /id="VSP_036606"
FT CONFLICT 98
FT /note="S -> C (in Ref. 4; AAB68740)"
FT /evidence="ECO:0000305"
FT CONFLICT 132
FT /note="R -> S (in Ref. 4; AAB68740)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 411 AA; 45482 MW; B0405FB4AEFA0202 CRC64;
MAMVVSVWRD PQEDVAGGPP SGPNPAAQPA REQQQAASAA PHTPQTPSQP GPPSTPGTAG
DKGSQNSGQS QQHIECVVCG DKSSGKHYGQ FTCEGCKSFF KRSVRRNLTY TCRANRNCPI
DQHHRNQCQY CRLKKCLKVG MRREAVQRGR MPPTQPNPGQ YALTNGDPLN GHCYLSGYIS
LLLRAEPYPT SRYGSQCMQP NNIMGIENIC ELAARLLFSA VEWARNIPFF PDLQITDQVS
LLRLTWSELF VLNAAQCSMP LHVAPLLAAA GLHASPMSAD RVVAFMDHIR IFQEQVEKLK
ALHVDSAEYS CIKAIVLFTS DACGLSDAAH IESLQEKSQC ALEEYVRSQY PNQPSRFGKL
LLRLPSLRTV SSSVIEQLFF VRLVGKTPIE TLIRDMLLSG SSFNWPYMSI Q
