LOCUS       NM_001100980            3114 bp    mRNA    linear   ROD 30-MAR-2024
DEFINITION  Rattus norvegicus ephrin B3 (Efnb3), mRNA.
ACCESSION   NM_001100980 XM_001079433 XM_340824
VERSION     NM_001100980.4
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 3114)
  AUTHORS   Hoque,A.F., Rahman,M.M., Lamia,A.S., Islam,A., Klena,J.D.,
            Satter,S.M., Epstein,J.H., Montgomery,J.M., Hossain,M.E.,
            Shirin,T., Jahid,I.K. and Rahman,M.Z.
  TITLE     In silico prediction of interaction between Nipah virus attachment
            glycoprotein and host cell receptors Ephrin-B2 and Ephrin-B3 in
            domestic and peridomestic mammals
  JOURNAL   Infect Genet Evol 116, 105516 (2023)
   PUBMED   37924857
  REMARK    GeneRIF: In silico prediction of interaction between Nipah virus
            attachment glycoprotein and host cell receptors Ephrin-B2 and
            Ephrin-B3 in domestic and peridomestic mammals.
REFERENCE   2  (bases 1 to 3114)
  AUTHORS   Huang,H., Li,R., Yuan,J., Zhou,X., Liu,X., Ou,S., Xu,T. and Chen,Y.
  TITLE     Up-regulated ephrinB3/EphB3 expression in intractable temporal lobe
            epilepsy patients and pilocarpine induced experimental epilepsy rat
            model
  JOURNAL   Brain Res 1639, 1-12 (2016)
   PUBMED   26930615
  REMARK    GeneRIF: Study found up-regulated expression of ephrinB3/EphB3 in
            intractable temporal lobe epilepsy patients and experimental
            temporal lobe epilepsy rats, which suggested that ephrinB3/EphB3
            might be involved in the pathogenesis of temporal lobe epilepsy
REFERENCE   3  (bases 1 to 3114)
  AUTHORS   Syed,Y.A., Zhao,C., Mahad,D., Mobius,W., Altmann,F., Foss,F.,
            Gonzalez,G.A., Senturk,A., Acker-Palmer,A., Lubec,G., Lilley,K.,
            Franklin,R.J.M., Nave,K.A. and Kotter,M.R.N.
  TITLE     Antibody-mediated neutralization of myelin-associated EphrinB3
            accelerates CNS remyelination
  JOURNAL   Acta Neuropathol 131 (2), 281-298 (2016)
   PUBMED   26687980
  REMARK    GeneRIF: Findings suggest that EphrinB3 may be a relevant target
            for promoting remyelination in demyelinating disease
            Erratum:[Acta Neuropathol. 2016 Jul;132(1):157. PMID: 27161252]
REFERENCE   4  (bases 1 to 3114)
  AUTHORS   Hruska,M., Henderson,N.T., Xia,N.L., Le Marchand,S.J. and
            Dalva,M.B.
  TITLE     Anchoring and synaptic stability of PSD-95 is driven by ephrin-B3
  JOURNAL   Nat Neurosci 18 (11), 1594-1605 (2015)
   PUBMED   26479588
  REMARK    GeneRIF: ephrin-B3 specifies the synaptic localization of PSD-95
            and likely links the synaptic stability of PSD-95 to changes in
            neuronal activity
REFERENCE   5  (bases 1 to 3114)
  AUTHORS   Qu,Y., Zhao,J., Wang,Y. and Gao,Z.
  TITLE     Silencing ephrinB3 improves functional recovery following spinal
            cord injury
  JOURNAL   Mol Med Rep 9 (5), 1761-1766 (2014)
   PUBMED   24604122
  REMARK    GeneRIF: ephrinB3 silencing contributes to axonal growth
            regeneration and improves recovery from spinal cord injury (SCI).
REFERENCE   6  (bases 1 to 3114)
  AUTHORS   Kullander,K., Butt,S.J., Lebret,J.M., Lundfald,L., Restrepo,C.E.,
            Rydstrom,A., Klein,R. and Kiehn,O.
  TITLE     Role of EphA4 and EphrinB3 in local neuronal circuits that control
            walking
  JOURNAL   Science 299 (5614), 1889-1892 (2003)
   PUBMED   12649481
REFERENCE   7  (bases 1 to 3114)
  AUTHORS   Takemoto,M., Fukuda,T., Sonoda,R., Murakami,F., Tanaka,H. and
            Yamamoto,N.
  TITLE     Ephrin-B3-EphA4 interactions regulate the growth of specific
            thalamocortical axon populations in vitro
  JOURNAL   Eur J Neurosci 16 (6), 1168-1172 (2002)
   PUBMED   12383247
  REMARK    GeneRIF: Axonal growth was inhibited in cells from the lateral
            thalamus exposed to ephrin B3 but not from the medial thalamus,
            suggesting that ephrin-B3 contributes to regional specificity by
            suppressing axonal growth of lateral thalamic neurons.
REFERENCE   8  (bases 1 to 3114)
  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   9  (bases 1 to 3114)
  AUTHORS   Yokoyama,N., Romero,M.I., Cowan,C.A., Galvan,P., Helmbacher,F.,
            Charnay,P., Parada,L.F. and Henkemeyer,M.
  TITLE     Forward signaling mediated by ephrin-B3 prevents contralateral
            corticospinal axons from recrossing the spinal cord midline
  JOURNAL   Neuron 29 (1), 85-97 (2001)
   PUBMED   11182083
REFERENCE   10 (bases 1 to 3114)
  AUTHORS   Gale,N.W., Flenniken,A., Compton,D.C., Jenkins,N., Copeland,N.G.,
            Gilbert,D.J., Davis,S., Wilkinson,D.G. and Yancopoulos,G.D.
  TITLE     Elk-L3, a novel transmembrane ligand for the Eph family of receptor
            tyrosine kinases, expressed in embryonic floor plate, roof plate
            and hindbrain segments
  JOURNAL   Oncogene 13 (6), 1343-1352 (1996)
   PUBMED   8808709
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000010.1.
            
            On Oct 8, 2014 this sequence version replaced NM_001100980.3.
            
            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 :: SRR26643289.28109.1,
                                           SRR26643292.41248.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMN12840107,
                                           SAMN12840109 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-466               JAXUCZ010000010.1  54778782-54779247   c
            467-759             JAXUCZ010000010.1  54776355-54776647   c
            760-852             JAXUCZ010000010.1  54776077-54776169   c
            853-957             JAXUCZ010000010.1  54775862-54775966   c
            958-3114            JAXUCZ010000010.1  54773282-54775438   c
FEATURES             Location/Qualifiers
     source          1..3114
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="10"
                     /map="10q24"
     gene            1..3114
                     /gene="Efnb3"
                     /gene_synonym="ELK-L3"
                     /note="ephrin B3"
                     /db_xref="GeneID:360546"
                     /db_xref="RGD:2541"
     exon            1..466
                     /gene="Efnb3"
                     /gene_synonym="ELK-L3"
                     /inference="alignment:Splign:2.1.0"
     CDS             345..1367
                     /gene="Efnb3"
                     /gene_synonym="ELK-L3"
                     /note="ephrin ligand B3"
                     /codon_start=1
                     /product="ephrin-B3 precursor"
                     /protein_id="NP_001094450.2"
                     /db_xref="GeneID:360546"
                     /db_xref="RGD:2541"
                     /translation="MGGPHFGPGGVQVGALLLLGFAGLVSGLSLEPVYWNSANKRFQA
                     EGGYVLYPQIGDRLDLLCPRARPPGPHSSPSYEFYKLYLVGGAQGRRCEAPPAPNLLL
                     TCDRPDLDLRFTIKFQEYSPNLWGHEFRSHHDYYIIATSDGTREGLESLQGGVCLTRG
                     MKVLLRVGQSPRGGAVPRKPVSEMPMERDRGAAHSQEPGKDSIPGDPNSNATSRGAEG
                     PLPPPSMPAVAGAAGGLALLLLGVAGAGGAMCWRRRRAKPSESRHPGPGSFGRGGSLG
                     LGGGGGMGPREAEPGELGIALRGGGAADPPFCPHYEKVSGDYGHPVYIVQDGPPQSPP
                     NIYYKV"
     exon            467..759
                     /gene="Efnb3"
                     /gene_synonym="ELK-L3"
                     /inference="alignment:Splign:2.1.0"
     exon            760..852
                     /gene="Efnb3"
                     /gene_synonym="ELK-L3"
                     /inference="alignment:Splign:2.1.0"
     exon            853..957
                     /gene="Efnb3"
                     /gene_synonym="ELK-L3"
                     /inference="alignment:Splign:2.1.0"
     exon            958..3114
                     /gene="Efnb3"
                     /gene_synonym="ELK-L3"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ccagctcggt gtctccttct tcgctgcctt gcccggcgcc ccatgtcgcc cccgcccggc
       61 cctctgctcc ccatgtcccc cacgtagccc ggcgcacaaa tcccgaggtg cggcgcgtgg
      121 gccgggggtg catagggcgc ctgcagacgg cccctgcaag ggttctagtg gggctgagcg
      181 ctctggagcc ggggcgcaag catcgcagaa aagagggtcc ttgtgggagc tgggggtgac
      241 tagccaccca ccagggtgac tggggctcca cagcgtggta gccacccctg ggggtgagag
      301 actttggggg agttggtgcc ccgcccccag gccttggtag ggtcatgggg ggcccccatt
      361 ttgggccagg gggtgtgcaa gtcggggccc tgctgctgtt aggttttgcg gggctggtgt
      421 ctggactcag cctggagcct gtctactgga actcggcgaa taagaggttc caggcagagg
      481 gtggttacgt gctttaccct cagatcgggg accggctaga tctactttgt ccccgggccc
      541 ggcctcctgg cccccactcc tctcctagtt atgagttcta caaactgtac ctggtagggg
      601 gtgcccaggg tcggcgttgt gaggcacccc ctgccccaaa ccttcttctc acatgtgacc
      661 ggccagacct ggacctccgc ttcaccatca agttccagga atacagccct aacctctggg
      721 gccacgagtt cagatcccac cacgattact acataattgc cacatcagat gggacccggg
      781 aaggcctgga gagcttgcag ggaggtgtgt gcctaaccag aggcatgaag gtgcttctgc
      841 gagtgggaca aagtccccga ggaggagctg taccccgaaa acctgtgtct gaaatgccca
      901 tggagagaga ccgaggggca gctcacagcc aggagcctgg gaaggacagc ataccaggtg
      961 accccaacag caatgcaacc tcccggggtg ctgaaggccc cctgccccct cccagcatgc
     1021 ccgcggtggc tggggcagca ggggggctgg cgctgctctt gctgggcgtg gcaggggctg
     1081 ggggtgccat gtgttggcgg agacggcggg ccaagccttc ggagagtcgc caccctggtc
     1141 ctggctcctt tgggagagga gggtctctgg gcctgggtgg tggagggggg atgggacctc
     1201 gggaggctga gcctggggag ctaggaatag ccctgcgggg tggtggggct gcagatcccc
     1261 ccttctgccc tcactatgag aaggtgagtg gtgactacgg acaccctgtg tacattgtgc
     1321 aggatggccc cccccagagc cctccaaaca tctactacaa ggtatgaggg ctcctcccac
     1381 ttggctctcc tcaatccagt cgcccatggg gtgctcctcc agtgtaattt gtggtatgag
     1441 gtacacctgc gccatgactt tggccccctt tgccccaccg gctctttggc tccttctggc
     1501 tatagccccc atctccagtt ttaggatccc ttaagactcg actacacctc ttcctgccct
     1561 ccctctgtct ctgcctctta ggggaggggg gcacaggctc agcctccttc aatcactaca
     1621 caggtgtcct tttccttcgc ccacccagag taggggtggg aacggtctgt cttttggttg
     1681 gcacctcttt ctgcctctca ccgtttttct cttctctatt tcttattctc tctctccctc
     1741 tcctgtgtct aggtctgttc tcttcctcct ccctagcctc ctcctcctta catctccttt
     1801 aaccctcttg gcttcttgtc cttcctgtgc ctctcacgtg tctcctaggt tggggcatca
     1861 aagtatctct ccctcggctc ttggcccttt ccaacttttc ataccaactg ctcccctccg
     1921 tctgccaaaa acgggggctt ctgggggttg gaggggagat tctggcactc taccccccca
     1981 gctccaggca tgggcacagg gcctctttcc ctgcctttct atgtacttac tccagccatt
     2041 tggggtggtt actgggccac agcaaactac cctgagaaga agtgtcctgt tgtatccagt
     2101 ggctgatagg aagacatgaa gcagtgaaga catgatggac tggatctgat gctaaatggg
     2161 catcagatag gaagtgactt gttccagaca agaagtgacc aggcctggac agaaatggcc
     2221 tgggaagtaa gtggcagcag caggaactgg aagtgccttc gtccagaaca ggaagtcgca
     2281 cttctgaaat aggaagtggt ctggctggaa ttccaagtgg cttagtctgg ggaggtggtg
     2341 ggggtggggg tgggggcatg ggaagtggat ggttcttacc ctgtggagaa aggggcagga
     2401 ggaacctcct gtgttaggag gaagctggag cttaccactg tgagaggaca gatgtggact
     2461 gagaattttc ttagtgctca gtggcacttc ccaaggactc ccctcccctt gtgctctgtg
     2521 cggtttttag gacagctaag atgactgcca cctgttgtgg caggcccgat ttgtcttgtt
     2581 ctccccttac tgtaccccga tataatctct gttgatcaac aggactaccc caagaatcca
     2641 catgttctcc cccgtaacca ggcagctgtc tggttcatgc cttcttccct tcaaacccaa
     2701 cccagcgccc ttgttagtga agaggtggtc catggactga tgacagttat tagcactgga
     2761 tgctgtttcc atagtgacaa gcctatacct cttcccaccc tttagtgcgc agtgggctgc
     2821 tgcttcagta tcctcccagc tcagttttat tagatcaaag ctgcccttgg gcaccatgtt
     2881 ggccacctca atcaccagcc aaaatggtcg ctttgtccac cagaggtcaa gccatctttc
     2941 tggcgctgta gttcccagct ccttctaggg aacaggaagt tgatattgcc atgggggagg
     3001 tggcggggtg tggccgtcac ctcaatagtt ttactgtaaa agggaaattt gaacaagaac
     3061 aacaacaaca aaaaaaaaaa aacaaagaaa aaaataaaaa actttaaaag ttga
//
