LOCUS       NM_004093               4995 bp    mRNA    linear   PRI 03-SEP-2024
DEFINITION  Homo sapiens ephrin B2 (EFNB2), transcript variant 1, mRNA.
ACCESSION   NM_004093
VERSION     NM_004093.4
KEYWORDS    RefSeq; MANE Select.
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 4995)
  AUTHORS   Wang,X., Zhang,Z., Hu,G. and Zhou,X.
  TITLE     Hypoxia-Induced Ephrin-B2 Facilitates Proliferation and Induces
            Glycolytic Metabolism in Cutaneous Squamous Cell Carcinoma by
            Modulating PKM2/HIF-1alpha Axis
  JOURNAL   Discov Med 36 (187), 1692-1702 (2024)
   PUBMED   39190384
  REMARK    GeneRIF: Hypoxia-Induced Ephrin-B2 Facilitates Proliferation and
            Induces Glycolytic Metabolism in Cutaneous Squamous Cell Carcinoma
            by Modulating PKM2/HIF-1alpha Axis.
REFERENCE   2  (bases 1 to 4995)
  AUTHORS   Zhang,Q., Li,J., Liu,F., Hu,J., Liu,F., Zou,J. and Wang,X.
  TITLE     Ephrin B2 (EFNB2) potentially protects against intervertebral disc
            degeneration through inhibiting nucleus pulposus cell apoptosis
  JOURNAL   Arch Biochem Biophys 756, 109990 (2024)
   PUBMED   38636690
  REMARK    GeneRIF: Ephrin B2 (EFNB2) potentially protects against
            intervertebral disc degeneration through inhibiting nucleus
            pulposus cell apoptosis.
REFERENCE   3  (bases 1 to 4995)
  AUTHORS   Sesen,J., Ghalali,A., Driscoll,J., Martinez,T., Lupieri,A.,
            Zurakowski,D., Alexandrescu,S., Smith,E.R. and Fehnel,K.P.
  TITLE     Discovery and Characterization of Ephrin B2 and EphB4 Dysregulation
            and Novel Mutations in Cerebral Cavernous Malformations: In Vitro
            and Patient-Derived Evidence of Ephrin-Mediated Endothelial Cell
            Pathophysiology
  JOURNAL   Cell Mol Neurobiol 44 (1), 12 (2023)
   PUBMED   38150042
  REMARK    GeneRIF: Discovery and Characterization of Ephrin B2 and EphB4
            Dysregulation and Novel Mutations in Cerebral Cavernous
            Malformations: In Vitro and Patient-Derived Evidence of
            Ephrin-Mediated Endothelial Cell Pathophysiology.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 4995)
  AUTHORS   Li,W., Su,S.A., Chen,J., Shen,Y., Ma,H. and Xiang,M.
  TITLE     EphrinB2 drives osteogenic fate of adult cardiac fibroblasts in a
            calcium influx dependent manner
  JOURNAL   Am J Physiol Cell Physiol 325 (1), C69-C78 (2023)
   PUBMED   37212547
  REMARK    GeneRIF: EphrinB2 drives osteogenic fate of adult cardiac
            fibroblasts in a calcium influx dependent manner.
REFERENCE   5  (bases 1 to 4995)
  AUTHORS   Li,D., Sun,A., Zhang,L., Ding,Z., Yi,F., Yang,X., Wang,Z., Chen,X.,
            Liu,W., Liu,S., Shen,H., Miao,M., Zhang,L., Liu,P., Liu,Y., Su,S.,
            Huang,H., Huang,C., Hu,Z., Zhang,H., Zha,X. and Liu,Y.
  TITLE     Elevated ITGA5 facilitates hyperactivated mTORC1-mediated
            progression of laryngeal squamous cell carcinoma via upregulation
            of EFNB2
  JOURNAL   Theranostics 12 (17), 7431-7449 (2022)
   PUBMED   36438491
  REMARK    GeneRIF: Elevated ITGA5 facilitates hyperactivated mTORC1-mediated
            progression of laryngeal squamous cell carcinoma via upregulation
            of EFNB2.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 4995)
  AUTHORS   Holland,S.J., Gale,N.W., Mbamalu,G., Yancopoulos,G.D.,
            Henkemeyer,M. and Pawson,T.
  TITLE     Bidirectional signalling through the EPH-family receptor Nuk and
            its transmembrane ligands
  JOURNAL   Nature 383 (6602), 722-725 (1996)
   PUBMED   8878483
REFERENCE   7  (bases 1 to 4995)
  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   8  (bases 1 to 4995)
  AUTHORS   Cerretti,D.P., Vanden Bos,T., Nelson,N., Kozlosky,C.J., Reddy,P.,
            Maraskovsky,E., Park,L.S., Lyman,S.D., Copeland,N.G., Gilbert,D.J.
            et al.
  TITLE     Isolation of LERK-5: a ligand of the eph-related receptor tyrosine
            kinases
  JOURNAL   Mol Immunol 32 (16), 1197-1205 (1995)
   PUBMED   8559144
REFERENCE   9  (bases 1 to 4995)
  AUTHORS   Bennett,B.D., Zeigler,F.C., Gu,Q., Fendly,B., Goddard,A.D.,
            Gillett,N. and Matthews,W.
  TITLE     Molecular cloning of a ligand for the EPH-related receptor
            protein-tyrosine kinase Htk
  JOURNAL   Proc Natl Acad Sci U S A 92 (6), 1866-1870 (1995)
   PUBMED   7534404
REFERENCE   10 (bases 1 to 4995)
  AUTHORS   Bonaldo,M.F., Yu,M.T., Jelenc,P., Brown,S., Su,L., Lawton,L.,
            Deaven,L., Efstratiadis,A., Warburton,D. and Soares,M.B.
  TITLE     Selection of cDNAs using chromosome-specific genomic clones:
            application to human chromosome 13
  JOURNAL   Hum Mol Genet 3 (9), 1663-1673 (1994)
   PUBMED   7833926
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AL138689.22 and KF455823.1.
            
            On Aug 6, 2019 this sequence version replaced NM_004093.3.
            
            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 EFNB
            class ephrin which binds to the EPHB4 and EPHA3 receptors.
            [provided by RefSeq, Jul 2008].
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            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 :: SRR12921934.3909750.1, U81262.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000646441.1/ ENSP00000493716.1
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-820               AL138689.22        101605-102424       c
            821-1104            AL138689.22        79291-79574         c
            1105-1197           AL138689.22        62510-62602         c
            1198-1311           AL138689.22        61643-61756         c
            1312-1453           AL138689.22        60049-60190         c
            1454-1818           KF455823.1         1-365               c
            1819-4995           AL138689.22        56507-59683         c
FEATURES             Location/Qualifiers
     source          1..4995
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="13"
                     /map="13q33.3"
     gene            1..4995
                     /gene="EFNB2"
                     /gene_synonym="ephrin-B2; EPLG5; Htk-L; HTKL; LERK5"
                     /note="ephrin B2"
                     /db_xref="GeneID:1948"
                     /db_xref="HGNC:HGNC:3227"
                     /db_xref="MIM:600527"
     exon            1..820
                     /gene="EFNB2"
                     /gene_synonym="ephrin-B2; EPLG5; Htk-L; HTKL; LERK5"
                     /inference="alignment:Splign:2.1.0"
     CDS             699..1700
                     /gene="EFNB2"
                     /gene_synonym="ephrin-B2; EPLG5; Htk-L; HTKL; LERK5"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; HTK ligand; ligand of eph-related kinase 5;
                     eph-related receptor tyrosine kinase ligand 5"
                     /codon_start=1
                     /product="ephrin-B2 isoform 1 precursor"
                     /protein_id="NP_004084.1"
                     /db_xref="CCDS:CCDS9507.1"
                     /db_xref="GeneID:1948"
                     /db_xref="HGNC:HGNC:3227"
                     /db_xref="MIM:600527"
                     /translation="MAVRRDSVWKYCWGVLMVLCRTAISKSIVLEPIYWNSSNSKFLP
                     GQGLVLYPQIGDKLDIICPKVDSKTVGQYEYYKVYMVDKDQADRCTIKKENTPLLNCA
                     KPDQDIKFTIKFQEFSPNLWGLEFQKNKDYYIISTSNGSLEGLDNQEGGVCQTRAMKI
                     LMKVGQDASSAGSTRNKDPTRRPELEAGTNGRSSTTSPFVKPNPGSSTDGNSAGHSGN
                     NILGSEVALFAGIASGCIIFIVIIITLVVLLLKYRRRHRKHSPQHTTTLSLSTLATPK
                     RSGNNNGSEPSDIIIPLRTADSVFCPHYEKVSGDYGHPVYIVQEMPPQSPANIYYKV"
     exon            821..1104
                     /gene="EFNB2"
                     /gene_synonym="ephrin-B2; EPLG5; Htk-L; HTKL; LERK5"
                     /inference="alignment:Splign:2.1.0"
     exon            1105..1197
                     /gene="EFNB2"
                     /gene_synonym="ephrin-B2; EPLG5; Htk-L; HTKL; LERK5"
                     /inference="alignment:Splign:2.1.0"
     exon            1198..1311
                     /gene="EFNB2"
                     /gene_synonym="ephrin-B2; EPLG5; Htk-L; HTKL; LERK5"
                     /inference="alignment:Splign:2.1.0"
     exon            1312..4995
                     /gene="EFNB2"
                     /gene_synonym="ephrin-B2; EPLG5; Htk-L; HTKL; LERK5"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4968..4973
                     /regulatory_class="polyA_signal_sequence"
                     /gene="EFNB2"
                     /gene_synonym="ephrin-B2; EPLG5; Htk-L; HTKL; LERK5"
                     /note="hexamer: AATAAA"
     polyA_site      4995
                     /gene="EFNB2"
                     /gene_synonym="ephrin-B2; EPLG5; Htk-L; HTKL; LERK5"
                     /note="major polyA site"
ORIGIN      
        1 gctgactctc ctcggcgggg accgcggcgc cggccggagc gaggagctgc gcacgcagcg
       61 ggtcccggcg ccctccccgc acacaaaggc ccgcgcgcgt ccggagcccg cggcggggac
      121 cgagctccct ctttcctgcc ctgggggccg ggagccgcgc ggactgagaa ggctcctgcg
      181 cgcccggagg cgccctactc cgctccgtgc tccgggacat ggaaccgcgc cgacgcggcg
      241 cccgcgcgct cgggccgctg cccgctgcac tggatctata gtcacaggcg gccccgctcg
      301 gggcgcagcg cccgccgccc gcgccggtcg tctccgctcc gggtctttgt gtcccagccc
      361 gcacccgccc cgcgcccacc cgccagccgc ggccggcccg gcaccctgga gccgcacggg
      421 agtcggccgt ccgagctgcg tccggcgcgg cgccccggaa ccccgagtcc gccgcgccgc
      481 cgcgccccgc gcgtgcgctc ccgccccgcg ccctgagggc cccggagagc gagcgcacct
      541 ggcccggcga ccgctggagc tgcgcagcgc gcctcggagc tgcctgcggg cgcacgccgt
      601 cttccccgcc agtctgcccc ggaggattgg gggtcccagc ctgcgtcccg tcagtccctt
      661 cttggcccgg agtgcgcgga gctgggagtg gcttcgccat ggctgtgaga agggactccg
      721 tgtggaagta ctgctggggt gttttgatgg ttttatgcag aactgcgatt tccaaatcga
      781 tagttttaga gcctatctat tggaattcct cgaactccaa atttctacct ggacaaggac
      841 tggtactata cccacagata ggagacaaat tggatattat ttgccccaaa gtggactcta
      901 aaactgttgg ccagtatgaa tattataaag tttatatggt tgataaagac caagcagaca
      961 gatgcactat taagaaggaa aatacccctc tcctcaactg tgccaaacca gaccaagata
     1021 tcaaattcac catcaagttt caagaattca gccctaacct ctggggtcta gaatttcaga
     1081 agaacaaaga ttattacatt atatctacat caaatgggtc tttggagggc ctggataacc
     1141 aggagggagg ggtgtgccag acaagagcca tgaagatcct catgaaagtt ggacaagatg
     1201 caagttctgc tggatcaacc aggaataaag atccaacaag acgtccagaa ctagaagctg
     1261 gtacaaatgg aagaagttcg acaacaagtc cctttgtaaa accaaatcca ggttctagca
     1321 cagacggcaa cagcgccgga cattcgggga acaacatcct cggttccgaa gtggccttat
     1381 ttgcagggat tgcttcagga tgcatcatct tcatcgtcat catcatcacg ctggtggtcc
     1441 tcttgctgaa gtaccggagg agacacagga agcactcgcc gcagcacacg accacgctgt
     1501 cgctcagcac actggccaca cccaagcgca gcggcaacaa caacggctca gagcccagtg
     1561 acattatcat cccgctaagg actgcggaca gcgtcttctg ccctcactac gagaaggtca
     1621 gcggggacta cgggcacccg gtgtacatcg tccaggagat gcccccgcag agcccggcga
     1681 acatttacta caaggtctga gagggaccct ggtggtacct gtgctttccc agaggacacc
     1741 taatgtcccg atgcctccct tgagggtttg agagcccgcg tgctggagaa ttgactgaag
     1801 cacagcaccg ggggagaggg acactcctcc tcggaagagc ccgtcgcgct ggacagctta
     1861 cctagtcttg tagcattcgg ccttggtgaa cacacacgct ccctggaagc tggaagactg
     1921 tgcagaagac gcccattcgg actgctgtgc cgcgtcccac gtctcctcct cgaagccatg
     1981 tgctgcggtc actcaggcct ctgcagaagc caagggaaga cagtggtttg tggacgagag
     2041 ggctgtgagc atcctggcag gtgccccagg atgccacgcc tggaagggcc ggcttctgcc
     2101 tggggtgcat ttcccccgca gtgcataccg gacttgtcac acggacctcg ggctagttaa
     2161 ggtgtgcaaa gatctctaga gtttagtcct tactgtctca ctcgttctgt tacccagggc
     2221 tctgcagcac ctcacctgag acctccactc cacatctgca tcactcatgg aacactcatg
     2281 tctggagtcc cctcctccag ccgctggcaa caacagcttc agtccatggg taatccgttc
     2341 atagaaattg tgtttgctaa caaggtgccc tttagccaga tgctaggctg tctgcgaaga
     2401 aggctaggag ttcatagaag ggagtggggc tggggaaagg gctggctgca attgcagctc
     2461 actgctgctg cctctgaaac agaaagttgg aaaggaaaaa agaaaaaagc aattaggtag
     2521 cacagcactt tggttttgct gagatcgaag aggccagtag gagacacgac agcacacaca
     2581 gtggattcca gtgcatgggg aggcactcgc tgttatcaaa tagcgatgtg caggaagaaa
     2641 agcccctctt cattccgggg aacaaagacg ggtattgttg ggaaaggaac aggcttggag
     2701 ggaagggaga aagtaggccg ctgatgatat attcgggcag gactgttgtg gtactggcaa
     2761 taagatacac agctccgagc tgtaggagag tcggtctgct ttggatgatt ttttaagcag
     2821 actcagctgc tatacttatc acattttatt aaacacaggg aaagcattta ggagaatagc
     2881 agagagccaa atctgaccta aaagttgaaa agccaaaggt caaacaggct gtaattccat
     2941 catcatcgtt gttattaaag aatccttatc tataaaaggt aggtcagatc cccctccccc
     3001 caggttcctc cttcccctcc cgattgagcc ttacgacact ttggtttatg cggtgctgtc
     3061 cgggtgccag ggctgcaggg tcggtactga tggaggctgc agcgcccggt gctctgtgtc
     3121 aaggtgaagc acatacggca gacctcttag agtccttaag acggaagtaa attatgatgt
     3181 ccagggggag aaggaagata ggacgtattt ataataggta tatagaacac aagggatata
     3241 aaatgaaaga tttttactaa tatatatttt aaggttgcac acagtacaca ccagaagatg
     3301 tgaaattcat ttgtggcaat taagtggtcc caatgctcag cgcttaaaaa aacaaattgg
     3361 acagctactt ctgggaaaaa caacatcatt ccaaaaagaa caataatgag agcaaatgca
     3421 aaaataacca agtcctccga aggcatctca cggaaccgta gactaggaag tacgagcccc
     3481 acagagcagg aagccgatgt gactgcatca tatatttaac aatgacaaga tgttccggcg
     3541 tttatttctg cgttgggttt tcccttgcct tatgggctga agtgttctct agaatccagc
     3601 aggtcacact gggggcttca ggtgacgatt tagctgtggc tccctcctcc tgtcctcccc
     3661 cgcaccccct cccttctggg aaacaagaag agtaaacagg aaacctactt tttatgtgct
     3721 atgcaaaata gacatcttta acatagtcct gttactatgg taacactttg ctttctgaat
     3781 tggaagggaa aaaaaatgta gcgacagcat tttaaggttc tcagacctcc agtgagtacc
     3841 tgcaaaaatg agttgtcaca gaaattatga tcctctattt cctgaacctg gaaatgatgt
     3901 tggtccaaag tgcgtgtgtg tatgtgtgag tgggtgcgtg gtatacatgt gtacatatat
     3961 gtataatata tatctacaat atatattata tatatctata tcatatttct gtggagggtt
     4021 gccatggtaa ccagccacag tacatatgta attctttcca tcaccccaac ctctcctttc
     4081 tgtgcattca tgcaagagtt tcttgtaagc catcagaagt tacttttagg atgggggaga
     4141 ggggcgagaa ggggaaaaat gggaaatagt ctgattttaa tgaaatcaaa tgtatgtatc
     4201 atcagttggc tacgttttgg ttctatgcta aactgtgaaa aatcagatga attgataaaa
     4261 gagttccctg caaccaattg aaaagtgttc tgtgcgtctg ttttgtgtct ggtgcagaat
     4321 atgacaatct accaactgtc cctttgtttg aagttggttt agctttggaa agttactgta
     4381 aatgccttgc ttgtatgatc gtccctggtc acccgacttt ggaatttgca ccatcatgtt
     4441 tcagtgaaga tgctgtaaat aggttcagat tttactgtct atggatttgg ggtgttacag
     4501 tagccttatt caccttttta ataaaaatac acatgaaaac aagaaagaaa tggcttttct
     4561 tacccagatt gtgtacatag agcaatgttg gttttttata aagtctaagc aagatgtttt
     4621 gtataaaatc tgaattttgc aatgtattta gctacagctt gtttaacggc agtgtcattc
     4681 ccctttgcac tgtaatgagg aaaaaatggt ataaaaggtt gccaaattgc tgcatatttg
     4741 tgccgtaatt atgtaccatg aatatttatt taaaatttcg ttgtccaatt tgtaagtaac
     4801 acagtattat gcctgagtta taaatatttt tttctttctt tgttttattt taatagcctg
     4861 tcataggttt taaatctgct ttagtttcac attgcagtta gccccagaaa atgaaatccg
     4921 tgaagtcaca ttccacatct gtttcaaact gaatttgttc ttaaaaaaat aaaatatttt
     4981 tttcctatgg aaaaa
//
