LOCUS       NM_017089               3259 bp    mRNA    linear   ROD 27-MAR-2024
DEFINITION  Rattus norvegicus ephrin B1 (Efnb1), mRNA.
ACCESSION   NM_017089 XM_001057932 XM_001057992
VERSION     NM_017089.3
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 3259)
  AUTHORS   Jin,F., Zhao,L., Hu,Q. and Qi,F.
  TITLE     Peripheral EphrinB1/EphB1 signalling attenuates muscle hyperalgesia
            in MPS patients and a rat model of taut band-associated persistent
            muscle pain
  JOURNAL   Mol Pain 16, 1744806920984079 (2020)
   PUBMED   33356837
  REMARK    GeneRIF: Peripheral EphrinB1/EphB1 signalling attenuates muscle
            hyperalgesia in MPS patients and a rat model of taut
            band-associated persistent muscle pain.
REFERENCE   2  (bases 1 to 3259)
  AUTHORS   Fukusumi,Y., Zhang,Y., Yamagishi,R., Oda,K., Watanabe,T., Matsui,K.
            and Kawachi,H.
  TITLE     Nephrin-Binding Ephrin-B1 at the Slit Diaphragm Controls Podocyte
            Function through the JNK Pathway
  JOURNAL   J Am Soc Nephrol 29 (5), 1462-1474 (2018)
   PUBMED   29602834
  REMARK    GeneRIF: Through interactions with nephrin, ephrin-B1 maintains the
            structure and barrier function of the slit diaphragm. Moreover,
            phosphorylation of ephrin-B1 and, consequently, JNK are involved in
            the development of podocyte injury.
REFERENCE   3  (bases 1 to 3259)
  AUTHORS   Takeuchi,S., Katoh,H. and Negishi,M.
  TITLE     Eph/ephrin reverse signalling induces axonal retraction through
            RhoA/ROCK pathway
  JOURNAL   J Biochem 158 (3), 245-252 (2015)
   PUBMED   25922200
  REMARK    GeneRIF: we revealed that stimulation with the extracellular domain
            of EphB2 to activate Eph/ephrin reverse signalling induced axonal
            retraction in hippocampal neurons.
REFERENCE   4  (bases 1 to 3259)
  AUTHORS   Ogawa,K., Saeki,N., Igura,Y. and Hayashi,Y.
  TITLE     Complementary expression and repulsive signaling suggest that EphB2
            and ephrin-B1 are possibly involved in epithelial boundary
            formation at the squamocolumnar junction in the rodent stomach
  JOURNAL   Histochem Cell Biol 140 (6), 659-675 (2013)
   PUBMED   23881165
  REMARK    GeneRIF: The EphB2 and ephrin-B1 are possibly involved in
            epithelial boundary formation at the squamocolumnar junction.
REFERENCE   5  (bases 1 to 3259)
  AUTHORS   Ashley,G.R., Grace,O.C., Vanpoucke,G. and Thomson,A.A.
  TITLE     Identification of EphrinB1 expression in prostatic mesenchyme and a
            role for EphB-EphrinB signalling in prostate development
  JOURNAL   Differentiation 80 (2-3), 89-98 (2010)
   PUBMED   20633976
  REMARK    GeneRIF: identified expression of EphrinB1 in prostatic mesenchyme
            and suggest that the EphrinB signalling system acts as a regulator
            of prostate growth. EphrinB-EphB signalling may function as an
            autocrine regulator of mesenchyme
REFERENCE   6  (bases 1 to 3259)
  AUTHORS   Imondi,R. and Kaprielian,Z.
  TITLE     Commissural axon pathfinding on the contralateral side of the floor
            plate: a role for B-class ephrins in specifying the dorsoventral
            position of longitudinally projecting commissural axons
  JOURNAL   Development 128 (23), 4859-4871 (2001)
   PUBMED   11731465
REFERENCE   7  (bases 1 to 3259)
  AUTHORS   Inagaki,H., Maeda,S., Lin,K.H., Shimizu,N. and Saito,T.
  TITLE     rDLG6: a novel homolog of Drosophila DLG expressed in rat brain
  JOURNAL   Biochem Biophys Res Commun 265 (2), 462-468 (1999)
   PUBMED   10558890
REFERENCE   8  (bases 1 to 3259)
  AUTHORS   Bruckner,K., Pablo Labrador,J., Scheiffele,P., Herb,A.,
            Seeburg,P.H. and Klein,R.
  TITLE     EphrinB ligands recruit GRIP family PDZ adaptor proteins into raft
            membrane microdomains
  JOURNAL   Neuron 22 (3), 511-524 (1999)
   PUBMED   10197531
REFERENCE   9  (bases 1 to 3259)
  AUTHORS   Torres,R., Firestein,B.L., Dong,H., Staudinger,J., Olson,E.N.,
            Huganir,R.L., Bredt,D.S., Gale,N.W. and Yancopoulos,G.D.
  TITLE     PDZ proteins bind, cluster, and synaptically colocalize with Eph
            receptors and their ephrin ligands
  JOURNAL   Neuron 21 (6), 1453-1463 (1998)
   PUBMED   9883737
REFERENCE   10 (bases 1 to 3259)
  AUTHORS   Fletcher,F.A., Carpenter,M.K., Shilling,H., Baum,P., Ziegler,S.F.,
            Gimpel,S., Hollingsworth,T., Vanden Bos,T., James,L., Hjerrild,K.
            et al.
  TITLE     LERK-2, a binding protein for the receptor-tyrosine kinase ELK, is
            evolutionarily conserved and expressed in a developmentally
            regulated pattern
  JOURNAL   Oncogene 9 (11), 3241-3247 (1994)
   PUBMED   7936648
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from
            JAXUCZ010000021.1.
            
            On Nov 27, 2020 this sequence version replaced NM_017089.2.
            
            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 :: BC061744.1, SRR26643289.44908.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760383, SAMEA5760386
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-879               JAXUCZ010000021.1  68297529-68298407
            880-1157            JAXUCZ010000021.1  68306677-68306954
            1158-1250           JAXUCZ010000021.1  68307807-68307899
            1251-1376           JAXUCZ010000021.1  68308095-68308220
            1377-3259           JAXUCZ010000021.1  68308453-68310335
FEATURES             Location/Qualifiers
     source          1..3259
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="X"
                     /map="Xq22"
     gene            1..3259
                     /gene="Efnb1"
                     /gene_synonym="EFL-3; LERK2"
                     /note="ephrin B1"
                     /db_xref="GeneID:25186"
                     /db_xref="RGD:2540"
     exon            1..879
                     /gene="Efnb1"
                     /gene_synonym="EFL-3; LERK2"
                     /inference="alignment:Splign:2.1.0"
     CDS             752..1789
                     /gene="Efnb1"
                     /gene_synonym="EFL-3; LERK2"
                     /note="ELK-L; LERK-2; ELK ligand; EPH-related receptor
                     tyrosine kinase ligand 2"
                     /codon_start=1
                     /product="ephrin-B1 precursor"
                     /protein_id="NP_058785.2"
                     /db_xref="GeneID:25186"
                     /db_xref="RGD:2540"
                     /translation="MARPGQRWLSKWLVAMVVLTLCRLATPLAKNLEPVSWSSLNPKF
                     LSGKGLVIYPKIGDKLDIICPRAEAGRPYEYYKLYLVRPEQAAACSTVLDPNVLVTCN
                     KPQQEIRFTIKFQEFSPNYMGLEFKKYHDYYITSTSNGSLEGLENREGGVCRTRTMKI
                     VMKVGQDPNAVTPEQLTTSRPSKESDNTVKTATQAPGRGSQGDSDGKHETVNQQEKSG
                     PGAGGSGSGDTDSFFNSKVALFAAVGAGCVIFLLIIIFLTVLLLKLRKRHRKHTQQRA
                     AALSLSTLASPKGGSGTAGTEPSDIIIPLRTTENNYCPHYEKVSGDYGHPVYIVQEMP
                     PQSPANIYYKV"
     exon            880..1157
                     /gene="Efnb1"
                     /gene_synonym="EFL-3; LERK2"
                     /inference="alignment:Splign:2.1.0"
     exon            1158..1250
                     /gene="Efnb1"
                     /gene_synonym="EFL-3; LERK2"
                     /inference="alignment:Splign:2.1.0"
     exon            1251..1376
                     /gene="Efnb1"
                     /gene_synonym="EFL-3; LERK2"
                     /inference="alignment:Splign:2.1.0"
     exon            1377..3259
                     /gene="Efnb1"
                     /gene_synonym="EFL-3; LERK2"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 cgctggacag cagtgggggg tgtgtgagat tcgcactgac tgccgacact ccggctcaat
       61 cgccggggat taaggacttg gcgacccggc tgccgggctg cccggccgag gcttcagagg
      121 cgcaaattga tgggactgat ttgctcagta gggccgtact agtcttttaa gtatactgag
      181 aagggccggt gctaaagtag aagctgtcgt gggacgcgcc ggcgcggagt cccacagtgg
      241 cccggaggaa cggagtccgt gctaggggga cccagtccgg agcctgggga ccgagctcgc
      301 attgttggga gacaacccgc ctcttcttcc cagaggcgtc aatcccagga cggtcgaggc
      361 gtcggggcaa ccactgagcg ctctgcagag agacccggtc ggggagagga ctcgcagtct
      421 caaacagtct gggagagccg atcggaatcc ggcgggatca ctcgggggcg gcgagccccc
      481 gtcgcgcctc gtgcggcgga gaggccaggg gagaaagtcc tccgaggcag cagtccatgc
      541 gcgggttggg gacgcctgcc cagtgaatcc tcctggccag ccgggcgcag gagagcgacc
      601 ccgaggccgg cgggaggaga gtgcttcaag gccggcggct gcggaggatg ggcgcctaag
      661 tggctccgag cgctgcgcgg caagggcagg cgaggcgagc tttgctgagg aggtgctagg
      721 ggatcctgaa gtgcatcctg cccccgggaa aatggcccgg cctgggcagc gttggctcag
      781 caagtggctt gtggctatgg tcgtgctgac gctgtgccgg cttgccacgc cgttggccaa
      841 gaacctggag cccgtgtcct ggagctctct taaccctaag ttcctaagtg ggaagggctt
      901 ggtgatctac ccgaagattg gagataagct ggacatcatc tgcccccgag cagaagcagg
      961 acggccctac gagtactaca agctgtacct ggtgcggccg gagcaggcag ctgcttgcag
     1021 cactgtgctt gatcccaatg tactggtcac ttgcaacaag ccacagcagg aaatccgctt
     1081 taccatcaag ttccaggagt tcagccccaa ctacatgggc ctggaattca aaaagtacca
     1141 tgattactac attacatcaa catccaatgg gagcttggaa gggctggaga accgagaggg
     1201 aggtgtgtgc cgtacacgca ctatgaagat tgttatgaag gttgggcaag atccaaatgc
     1261 cgtaacgcct gagcagttga ctaccagccg gccaagcaaa gagtcagaca acactgtcaa
     1321 gacagccaca caggctcctg gtcgggggtc ccagggggac tctgatggca agcatgagac
     1381 tgtgaaccag caagagaaga gtggcccagg tgcaggtggt agtggcagcg gggacaccga
     1441 cagcttcttt aactccaagg tagcattgtt cgcagctgta ggtgctggct gcgtcatctt
     1501 cctgctcatt atcatctttt tgacagtcct actactcaag ctccgcaagc gacatcgcaa
     1561 gcatacacag cagcgggcgg ctgccctctc gctcagtacc ctagccagcc ccaaaggggg
     1621 tagtggtaca gcgggcactg agcccagcga catcatcatc cccttacgga ctacagagaa
     1681 caactactgc ccccactatg agaaggtgag tggggactac gggcatcctg tctacatcgt
     1741 ccaggagatg ccacctcaga gcccggcgaa catctactac aaggtctgag ggcccagcat
     1801 ggcctcaggc tccacaggac acatggcctg gattggcctc tcttttctcc cccacacccc
     1861 tccccttgcc agctgtgccc acctttgtat ttagttttgt agtttcttgg cttttataat
     1921 cccccttttt tcctgcccct tgggcttcgg aggggggtgc ttgtgccccc aatccccatg
     1981 ctcttgtgcc ttccccctct ggccaggcct ctgggctctg tgggggtgcc ctttcttgga
     2041 gggcagggtt ggacactgat ggactgcagg cagggagata gccccctggc cctgccccct
     2101 cctcatccct tcacccatcc ccaggactgc ttgtccacta tcatcactgt ttttaatgct
     2161 tttgtgttga tttttttagc tgtcaactca ttttcatctg ttttttttat ttttgagaaa
     2221 aatgggaaaa tgtacaaggc agcccctccc caggctttct gagcctggcc tgacccagta
     2281 taagagggcc tggggcagga tgtggccagc caggaaacat aggatggcat ttcttttata
     2341 gactcctcag tagttcaggg gagtggggga gggtaggcca tggctatttc tgcctagcag
     2401 ggagaggaga gtgccaccct cctttttgga cccccatgat acaatgctgt tcctagcagt
     2461 ggggtagtgt ctaccaccct tctaccaaaa aaaaatccct tccttgtggg attcttgggc
     2521 atctcctgcc tccttcactc tcacggtaat taatgtctta attggctgtt gcctggggaa
     2581 caggagagct gctgcaggca gatgacctca tggggggtgg agggaggtga ggtgcccagg
     2641 tggctatttg ccctgcagag ctgggagttc ccccccacca ccctgtctct ctccttacct
     2701 tcggcatctt tggctcaagg tggagataga tgtaagcggt gtaaggccag atggcctgct
     2761 ccttccctgg gttctagtac aagtaagcac acacacaccc ccactcactc aatatggctc
     2821 ccactgtccc ccaccccgcc catagttttg agcaggggcc tggaaagagg aagaggctgc
     2881 ttggggctgg gccagcctgc agtgcacttt gaccccagct ccttgccagc acggctgcta
     2941 acagactgcc actcaactgc gccttgcagg cactcccagg gctgccatgg aaggagctgg
     3001 gccttacacc acccacctcc acactgcctc ctggccagct gcccacccca gtgccaggtg
     3061 ggagagggag caaaacagcc agccccttcc aggtggcagt cggaagggat ttttgttttt
     3121 gattctgttg ccatttgtgt aaatactagt cttttttgga agaaataatg taaagatgtt
     3181 ttgtataaac tctgaattat tttcttgttg cttttttctt agaaaaaaat gagaactaaa
     3241 aaaaaattaa ccacatgga
//
