2024-12-03 09:19:44, GGRNA.v2 : RefSeq release 226 (Sep, 2024)
LOCUS NM_001406810 1207 bp mRNA linear PRI 13-JUN-2024 DEFINITION Homo sapiens ephrin A4 (EFNA4), transcript variant 4, mRNA. ACCESSION NM_001406810 VERSION NM_001406810.1 KEYWORDS RefSeq. SOURCE Homo sapiens (human) ORGANISM Homo sapiens Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo. REFERENCE 1 (bases 1 to 1207) AUTHORS Yuan,W., Zhao,H., Zhou,A. and Wang,S. TITLE Interference of EFNA4 suppresses cell proliferation, invasion and angiogenesis in hepatocellular carcinoma by downregulating PYGO2 JOURNAL Cancer Biol Ther 23 (1), 1-12 (2022) PUBMED 36404439 REMARK GeneRIF: Interference of EFNA4 suppresses cell proliferation, invasion and angiogenesis in hepatocellular carcinoma by downregulating PYGO2. REFERENCE 2 (bases 1 to 1207) AUTHORS Kousathanas,A., Pairo-Castineira,E., Rawlik,K., Stuckey,A., Odhams,C.A., Walker,S., Russell,C.D., Malinauskas,T., Wu,Y., Millar,J., Shen,X., Elliott,K.S., Griffiths,F., Oosthuyzen,W., Morrice,K., Keating,S., Wang,B., Rhodes,D., Klaric,L., Zechner,M., Parkinson,N., Siddiq,A., Goddard,P., Donovan,S., Maslove,D., Nichol,A., Semple,M.G., Zainy,T., Maleady-Crowe,F., Todd,L., Salehi,S., Knight,J., Elgar,G., Chan,G., Arumugam,P., Patch,C., Rendon,A., Bentley,D., Kingsley,C., Kosmicki,J.A., Horowitz,J.E., Baras,A., Abecasis,G.R., Ferreira,M.A.R., Justice,A., Mirshahi,T., Oetjens,M., Rader,D.J., Ritchie,M.D., Verma,A., Fowler,T.A., Shankar-Hari,M., Summers,C., Hinds,C., Horby,P., Ling,L., McAuley,D., Montgomery,H., Openshaw,P.J.M., Elliott,P., Walsh,T., Tenesa,A., Fawkes,A., Murphy,L., Rowan,K., Ponting,C.P., Vitart,V., Wilson,J.F., Yang,J., Bretherick,A.D., Scott,R.H., Hendry,S.C., Moutsianas,L., Law,A., Caulfield,M.J. and Baillie,J.K. CONSRTM GenOMICC investigators; 23andMe investigators; COVID-19 Human Genetics Initiative TITLE Whole-genome sequencing reveals host factors underlying critical COVID-19 JOURNAL Nature 607 (7917), 97-103 (2022) PUBMED 35255492 REFERENCE 3 (bases 1 to 1207) AUTHORS Chen,Y.L., Yen,Y.C., Jang,C.W., Wang,S.H., Huang,H.T., Chen,C.H., Hsiao,J.R., Chang,J.Y. and Chen,Y.W. TITLE Ephrin A4-ephrin receptor A10 signaling promotes cell migration and spheroid formation by upregulating NANOG expression in oral squamous cell carcinoma cells JOURNAL Sci Rep 11 (1), 644 (2021) PUBMED 33436772 REMARK GeneRIF: Ephrin A4-ephrin receptor A10 signaling promotes cell migration and spheroid formation by upregulating NANOG expression in oral squamous cell carcinoma cells. Publication Status: Online-Only REFERENCE 4 (bases 1 to 1207) AUTHORS Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W., Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B., Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A., Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A., Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C., Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M., Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G., Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S., Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A., Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S., Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N., Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A., Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M., Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J., Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P., Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J., Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A. TITLE A reference map of the human binary protein interactome JOURNAL Nature 580 (7803), 402-408 (2020) PUBMED 32296183 REFERENCE 5 (bases 1 to 1207) AUTHORS Flores,M.A., Fortea,P., Trinidad,E.M., Garcia,D., Soler,G., Ortuno,F.J., Zapata,A.G. and Alonso-Colmenar,L.M. TITLE EphrinA4 plays a critical role in alpha4 and alphaL mediated survival of human CLL cells during extravasation JOURNAL Oncotarget 7 (30), 48481-48500 (2016) PUBMED 27374180 REMARK GeneRIF: Study present for the first time in vitro and in vivo evidence suggesting that the major role of two ephrin A4 isoforms in chronic lymphocytic leukemia could be related with a non-previously described mechanism of survival linked to extravasation strongly dependent on integrin signaling. REFERENCE 6 (bases 1 to 1207) AUTHORS Zhou,R. TITLE The Eph family receptors and ligands JOURNAL Pharmacol Ther 77 (3), 151-181 (1998) PUBMED 9576626 REMARK Review article REFERENCE 7 (bases 1 to 1207) AUTHORS Flanagan,J.G. and Vanderhaeghen,P. TITLE The ephrins and Eph receptors in neural development JOURNAL Annu Rev Neurosci 21, 309-345 (1998) PUBMED 9530499 REMARK Review article REFERENCE 8 (bases 1 to 1207) AUTHORS Gale,N.W., Holland,S.J., Valenzuela,D.M., Flenniken,A., Pan,L., Ryan,T.E., Henkemeyer,M., Strebhardt,K., Hirai,H., Wilkinson,D.G., Pawson,T., Davis,S. and Yancopoulos,G.D. TITLE Eph receptors and ligands comprise two major specificity subclasses and are reciprocally compartmentalized during embryogenesis JOURNAL Neuron 17 (1), 9-19 (1996) PUBMED 8755474 REFERENCE 9 (bases 1 to 1207) AUTHORS Cerretti,D.P., Lyman,S.D., Kozlosky,C.J., Copeland,N.G., Gilbert,D.J., Jenkins,N.A., Valentine,V., Kirstein,M.N., Shapiro,D.N. and Morris,S.W. TITLE The genes encoding the eph-related receptor tyrosine kinase ligands LERK-1 (EPLG1, Epl1), LERK-3 (EPLG3, Epl3), and LERK-4 (EPLG4, Epl4) are clustered on human chromosome 1 and mouse chromosome 3 JOURNAL Genomics 33 (2), 277-282 (1996) PUBMED 8660976 REFERENCE 10 (bases 1 to 1207) AUTHORS Kozlosky,C.J., Maraskovsky,E., McGrew,J.T., VandenBos,T., Teepe,M., Lyman,S.D., Srinivasan,S., Fletcher,F.A., Gayle,R.B. 3rd, Cerretti,D.P. et al. TITLE Ligands for the receptor tyrosine kinases hek and elk: isolation of cDNAs encoding a family of proteins JOURNAL Oncogene 10 (2), 299-306 (1995) PUBMED 7838529 COMMENT REVIEWED REFSEQ: This record has been curated by NCBI staff. The reference sequence was derived from AL691442.32. Summary: This gene encodes a member of the ephrin (EPH) family. The ephrins and EPH-related receptors comprise the largest subfamily of receptor protein-tyrosine kinases and have been implicated in mediating developmental events, especially in the nervous system and in erythropoiesis. Based on their structures and sequence relationships, ephrins are divided into the ephrin-A (EFNA) class, which are anchored to the membrane by a glycosylphosphatidylinositol linkage, and the ephrin-B (EFNB) class, which are transmembrane proteins. This gene encodes an EFNA class ephrin that has been implicated in proliferation and metastasis of several types of cancers. [provided by RefSeq, May 2022]. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##Evidence-Data-START## Transcript exon combination :: SRR14372080.3010822.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA2142680, SAMEA2145240 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## coronavirus related :: locus in the vicinity of disease-associated variant(s) ##RefSeq-Attributes-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-197 AL691442.32 12012-12208 198-316 AL691442.32 12714-12832 317-603 AL691442.32 15002-15288 604-672 AL691442.32 15644-15712 673-1207 AL691442.32 17291-17825 FEATURES Location/Qualifiers source 1..1207 /organism="Homo sapiens" /mol_type="mRNA" /db_xref="taxon:9606" /chromosome="1" /map="1q21.3" gene 1..1207 /gene="EFNA4" /gene_synonym="EFL4; EPLG4; LERK-4; LERK4" /note="ephrin A4" /db_xref="GeneID:1945" /db_xref="HGNC:HGNC:3224" /db_xref="MIM:601380" exon 1..197 /gene="EFNA4" /gene_synonym="EFL4; EPLG4; LERK-4; LERK4" /inference="alignment:Splign:2.1.0" exon 198..316 /gene="EFNA4" /gene_synonym="EFL4; EPLG4; LERK-4; LERK4" /inference="alignment:Splign:2.1.0" misc_feature 252..254 /gene="EFNA4" /gene_synonym="EFL4; EPLG4; LERK-4; LERK4" /note="upstream in-frame stop codon" exon 317..603 /gene="EFNA4" /gene_synonym="EFL4; EPLG4; LERK-4; LERK4" /inference="alignment:Splign:2.1.0" CDS 432..827 /gene="EFNA4" /gene_synonym="EFL4; EPLG4; LERK-4; LERK4" /note="isoform d is encoded by transcript variant 4; ligand of eph-related kinase 4; eph-related receptor tyrosine kinase ligand 4" /codon_start=1 /product="ephrin-A4 isoform d" /protein_id="NP_001393739.1" /db_xref="GeneID:1945" /db_xref="HGNC:HGNC:3224" /db_xref="MIM:601380" /translation="
MVDWPGYESCQAEGPRAYKRWVCSLPFGHVQFSEKIQRFTPFSLGFEFLPGETYYYISVPTPESSGQCLRLQVSVCCKERRARVLPRSPGGGGIPAACTGGANSDRQDGALMGEIRGSEVTLAGACPLITG"
misc_feature <432..659 /gene="EFNA4" /gene_synonym="EFL4; EPLG4; LERK-4; LERK4" /note="Cupredoxin superfamily; Region: Cupredoxin; cl19115" /db_xref="CDD:473140" exon 604..672 /gene="EFNA4" /gene_synonym="EFL4; EPLG4; LERK-4; LERK4" /inference="alignment:Splign:2.1.0" exon 673..1207 /gene="EFNA4" /gene_synonym="EFL4; EPLG4; LERK-4; LERK4" /inference="alignment:Splign:2.1.0" regulatory 1174..1179 /regulatory_class="polyA_signal_sequence" /gene="EFNA4" /gene_synonym="EFL4; EPLG4; LERK-4; LERK4" /note="hexamer: AATAAA" polyA_site 1207 /gene="EFNA4" /gene_synonym="EFL4; EPLG4; LERK-4; LERK4" /note="major polyA site" ORIGIN
ccctcttcactttgtacctttctctcctcgactgtgaagcgggccgggacctgccaggccagaccaaaccggacctcgggggcgatgcggctgctgcccctgctgcggactgtcctctgggccgcgttcctcggctcccctctgcgcgggggctccagcctccgccacgtagtctactggaactccagtaaccccagtgtcagccctgcccttctagccgaatcacctctgggcaagtctcgtgaccttcctaacctcatttatctcacctgtataatgggctaataatacctagtaccctgggaagtctggcagggttgcttcgaggagacgccgtggtggagctgggcctcaacgattacctagacattgtctgcccccactacgaaggcccagggccccctgagggccccgagacgtttgctttgtacatggtggactggccaggctatgagtcctgccaggcagagggcccccgggcctacaagcgctgggtgtgctccctgccctttggccatgttcaattctcagagaagattcagcgcttcacacccttctccctcggctttgagttcttacctggagagacttactactacatctcggtgcccactccagagagttctggccagtgcttgaggctccaggtgtctgtctgctgcaaggagaggagagccagagtcctcccaagatcccctggaggaggagggatccctgctgcctgcactgggggtgccaattcagaccgacaagatggagcattgatgggggagatcagagggtctgaggtgactcttgcaggagcctgtcccctcatcacaggctaaagaagagcagtagacagccctggacactctgaagcagaggcaagacaaacacaggcgctttgcaggctgctctgagggtctcagcccatcccccaggaggactgggatttggtatgatcaaatcctcaagccagctgggggcccaggctgaagacctggggacaggtcgattgctggaccagggcaaagaagaagccctgccatctgtgccctgtgggccttttccctggggcagcaccttgccctccccaggggatcactcacttgtcttctatgaagacggactcttcatgaggttgaatttcatgccagtttgtatttttataagtatctagaccaaaccttcaataaaccactcatctttttgttgccctccccaa
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If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596.
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