LOCUS       NM_001107768            5874 bp    mRNA    linear   ROD 24-JUN-2024
DEFINITION  Rattus norvegicus semaphorin 6D (Sema6d), mRNA.
ACCESSION   NM_001107768 XM_001077367 XM_230583
VERSION     NM_001107768.1
KEYWORDS    RefSeq.
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 5874)
  AUTHORS   Yang,H., Yang,Z., Yu,Z., Xiong,C., Zhang,Y., Zhang,J., Huang,Y.,
            Zhou,X., Li,J. and Xu,N.
  TITLE     SEMA6D, Negatively Regulated by miR-7, Contributes to C28/I2
            chondrocyte's Catabolic and Anabolic Activities via p38 Signaling
            Pathway
  JOURNAL   Oxid Med Cell Longev 2022, 9674221 (2022)
   PUBMED   35757507
  REMARK    GeneRIF: SEMA6D, Negatively Regulated by miR-7, Contributes to
            C28/I2 chondrocyte's Catabolic and Anabolic Activities via p38
            Signaling Pathway.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 5874)
  AUTHORS   Henke,A., Grace,O.C., Ashley,G.R., Stewart,G.D., Riddick,A.C.,
            Yeun,H., O'Donnell,M., Anderson,R.A. and Thomson,A.A.
  TITLE     Stromal expression of decorin, Semaphorin6D, SPARC, Sprouty1 and
            Tsukushi in developing prostate and decreased levels of decorin in
            prostate cancer
  JOURNAL   PLoS One 7 (8), e42516 (2012)
   PUBMED   22880013
  REMARK    GeneRIF: The spatio-temporal expression of Decorin, Semaphorin6D,
            SPARC, Spry-1 and Tsukushi in developing prostate is described and
            observed similar mesenchymal expression patterns in rat and human.
REFERENCE   3  (bases 1 to 5874)
  AUTHORS   Yoshida,Y., Han,B., Mendelsohn,M. and Jessell,T.M.
  TITLE     PlexinA1 signaling directs the segregation of proprioceptive
            sensory axons in the developing spinal cord
  JOURNAL   Neuron 52 (5), 775-788 (2006)
   PUBMED   17145500
REFERENCE   4  (bases 1 to 5874)
  AUTHORS   Toyofuku,T., Zhang,H., Kumanogoh,A., Takegahara,N., Suto,F.,
            Kamei,J., Aoki,K., Yabuki,M., Hori,M., Fujisawa,H. and Kikutani,H.
  TITLE     Dual roles of Sema6D in cardiac morphogenesis through
            region-specific association of its receptor, Plexin-A1, with
            off-track and vascular endothelial growth factor receptor type 2
  JOURNAL   Genes Dev 18 (4), 435-447 (2004)
   PUBMED   14977921
REFERENCE   5  (bases 1 to 5874)
  AUTHORS   Qu,X., Wei,H., Zhai,Y., Que,H., Chen,Q., Tang,F., Wu,Y., Xing,G.,
            Zhu,Y., Liu,S., Fan,M. and He,F.
  TITLE     Identification, characterization, and functional study of the two
            novel human members of the semaphorin gene family
  JOURNAL   J Biol Chem 277 (38), 35574-35585 (2002)
   PUBMED   12110693
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from CH473949.1.
            
            On or before Oct 4, 2007 this sequence version replaced
            XM_230583.4, XM_001077367.1.
            
            ##Evidence-Data-START##
            RNAseq introns :: single sample supports all introns SAMN11044071,
                              SAMN12840132 [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..5874
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10116"
                     /chromosome="3"
                     /map="3q36"
     gene            1..5874
                     /gene="Sema6d"
                     /note="semaphorin 6D"
                     /db_xref="GeneID:311384"
                     /db_xref="RGD:1310910"
     exon            1..438
                     /gene="Sema6d"
                     /inference="alignment:Splign:2.1.0"
     exon            439..599
                     /gene="Sema6d"
                     /inference="alignment:Splign:2.1.0"
     CDS             491..3463
                     /gene="Sema6d"
                     /note="sema domain, transmembrane domain (TM), and
                     cytoplasmic domain, (semaphorin) 6D"
                     /codon_start=1
                     /product="semaphorin-6D precursor"
                     /protein_id="NP_001101238.1"
                     /db_xref="GeneID:311384"
                     /db_xref="RGD:1310910"
                     /translation="MRFFLLWFCVLFLLVSRLRAVSFPEDDEPLNTVDYHYSRQYPVF
                     RGRPSGNESQHRLDFQLMLKIRDTLYIAGRDQVYTVNLNDIPQTEVIPSKDECHNFIK
                     VFVPRNDEMVFVCGTNAFNPMCRYYRLSTLEYDGEEISGLARCPFDARQTNVALFADG
                     KLYSATVADFLASDAVIYRSMGDGSALRTIKYDSKWIKEPHFLHAIEYGNYVYFFFRE
                     IAVEHNNLGKAVYSRVARICKNDMGGSQRVLEKHWTSFLKARLNCSVPGDSFFYFDVL
                     QSITDIIQINGIPTVIGVFTTQLNSIPGSAVCAFSMDDIEKVFKGRFKEQKTPDSVWT
                     AVPEDKVPKPRPGCCAKHGLAEAYKTSIDFPDDTLSFIKSHPLMDSAVPPIADEPWFT
                     KTRVRYRLTAIEVDRSAGPYQNYTVIFVGSEAGVVLKVLAKTSPFSLNDSVLLEEIEA
                     YNPAKCSAESEEDRKVVSLQLDRDHHALYVAFSSCVVRIPLSRCERYGSCKKSCIASR
                     DPYCGWLSQGVCERVTLGMLLLTEDFFAFHNHSAGGYEQDTEYGNTAHLGDCHGVRWE
                     VQSGDSNQMVHMNVLITCVFAAFVLGAFIAGVAVYCYRDMFVRKNRKIHKDAESAQSC
                     TDSSGSFAKLNGLFDSPVKEYQQNIDSPKLYSNLLTSRKELPPNTDPKSMAMDHRGQP
                     PELAALPTPESTPVLHQKTLQAMKSHSDKAHGHGASRKEHPQFFPSSPPPHSPLSHGH
                     IPSAIVLPNATHDYNTSFSNSNAHKAEKKLQNVDHPLTKSSSKREHRRSVDSRNTLND
                     LLKHLNDPNSNAKAIMGEIHMAHQTLMLDPVGPMSEVPPKVPNREASLYSPPSTLPRN
                     SPTKRVDVPTTPGVPMTSLERQRGYHKNSSQRHSISAVPKNLNSPNGVLLSRQPSMNR
                     GGYMPTPTGAKVDYIQGTPVSVHLQPSLSRQSSYTSNGTLPRTGLKRTPSLKPDVPPK
                     PSFVPQTTSVRPLNKYTY"
     exon            600..711
                     /gene="Sema6d"
                     /inference="alignment:Splign:2.1.0"
     exon            712..772
                     /gene="Sema6d"
                     /inference="alignment:Splign:2.1.0"
     exon            773..874
                     /gene="Sema6d"
                     /inference="alignment:Splign:2.1.0"
     exon            875..965
                     /gene="Sema6d"
                     /inference="alignment:Splign:2.1.0"
     exon            966..1085
                     /gene="Sema6d"
                     /inference="alignment:Splign:2.1.0"
     exon            1086..1174
                     /gene="Sema6d"
                     /inference="alignment:Splign:2.1.0"
     exon            1175..1392
                     /gene="Sema6d"
                     /inference="alignment:Splign:2.1.0"
     exon            1393..1524
                     /gene="Sema6d"
                     /inference="alignment:Splign:2.1.0"
     exon            1525..1680
                     /gene="Sema6d"
                     /inference="alignment:Splign:2.1.0"
     exon            1681..1854
                     /gene="Sema6d"
                     /inference="alignment:Splign:2.1.0"
     exon            1855..1995
                     /gene="Sema6d"
                     /inference="alignment:Splign:2.1.0"
     exon            1996..2073
                     /gene="Sema6d"
                     /inference="alignment:Splign:2.1.0"
     exon            2074..2174
                     /gene="Sema6d"
                     /inference="alignment:Splign:2.1.0"
     exon            2175..5874
                     /gene="Sema6d"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 aagtttcttc ctggcagggc tggctctgcg ctgttccgca agccgtcagg gtgagcccgc
       61 cttcctcgcc gcggggcttg cagcctccaa ccctccagcc cgcagcgcag cccaggctgc
      121 ccggccacct tcggctggga ggacgcctgg gagcgcggag ccactgactg ggcacccacc
      181 cgcggggttc tcagccactc tcccccgcaa ctttgcgtgc tttgttctct gactgaaaaa
      241 tgctccaccg aagcgccctg gacggggtct tctccaggcg gcaagggctc gaccgggaga
      301 cgtgttacgc tctcagctcc ccatcaatta tggatggaaa caaataagga aaagtcaatt
      361 ttgtatgagc cgcttctttc gcggctagag gcgtcttgta gccgggagca gaggcaggca
      421 aaccgaggcc aacaccagga agctaagtgg gacttctgag gagggagctc agataccttc
      481 tcggccaacc atgaggttct ttctgctgtg gttctgtgtg ctgttccttc tggtctccag
      541 gttacgggcc gtcagcttcc ctgaggacga tgagcccctt aacacggttg actaccacta
      601 ttcaaggcaa tatccggttt ttagaggacg cccttcaggc aacgaatcgc agcataggct
      661 ggactttcag ctgatgttga aaattcgaga cacactttat attgctggca gggatcaagt
      721 ctatacagtg aacttaaatg acatccccca aacagaggtg atcccgagca aggatgaatg
      781 tcacaacttc atcaaagtct ttgtcccaag aaatgatgag atggtttttg tctgtggcac
      841 caacgctttc aacccgatgt gcagatacta taggttgagt accttagagt atgatgggga
      901 agaaattagt ggcctggcac ggtgcccgtt tgatgcccga caaaccaatg ttgccctctt
      961 tgctgatggg aaactgtatt ctgccacagt ggctgatttc ctggccagtg atgctgtcat
     1021 ttacagaagc atgggtgatg gatcggccct ccgcacaata aaatacgact ccaaatggat
     1081 caaagaacca cactttcttc acgccataga atatggaaac tatgtctatt tcttcttcag
     1141 agaaatcgcc gtggaacata ataacttagg caaggctgtg tactcccgag tggcccgcat
     1201 ttgtaaaaac gacatgggtg gctcacagcg ggtcctggag aaacactgga cttccttcct
     1261 gaaggctcgg cttaactgct cagtccctgg agattccttt ttctacttcg atgttctgca
     1321 gtccatcaca gacatcatcc aaatcaatgg catccccacc gtgatcgggg tcttcaccac
     1381 gcagctcaac agcattcctg gctctgcagt ctgtgccttt agcatggacg acattgagaa
     1441 agtgttcaaa gggcggttca aagagcagaa aaccccagac tctgtttgga cagcggttcc
     1501 tgaagacaaa gtaccaaaac caaggcctgg ctgttgtgcc aaacatggcc tcgcggaagc
     1561 ttacaaaacc tccatcgact ttccagatga taccctgtct ttcatcaagt cccacccgct
     1621 gatggactcc gctgtcccac ccattgctga tgagccctgg ttcacaaaga ctcgggtccg
     1681 gtacaggctg acagccatcg aagtggaccg ttcggcaggg ccgtaccaaa actacacagt
     1741 catctttgtt ggctctgagg ccggcgtggt gcttaaagtt ttggcaaaga ccagtccttt
     1801 ctctttgaac gacagtgtat tactcgaaga gatcgaagct tataacccag ccaagtgcag
     1861 cgccgagagt gaggaggaca ggaaggtcgt ctcgttacag ctggacaggg atcaccatgc
     1921 tttatacgtg gccttctcca gctgcgtggt ccgcatcccc ctcagccgct gtgagcgcta
     1981 tggctcctgt aaaaagtctt gcattgcatc acgagacccg tactgtggtt ggttaagcca
     2041 gggagtgtgt gagagagtga ccttagggat gctgctgtta accgaagact tctttgcttt
     2101 ccataaccac agtgctggag gatatgagca ggacaccgag tatggcaaca cggcccacct
     2161 aggggactgc cacggtgtac ggtgggaagt ccagtctgga gattccaacc agatggtcca
     2221 catgaatgtc ctcatcacct gcgtgtttgc agcttttgtc ttgggcgcgt tcatcgcagg
     2281 agtggctgtg tactgctatc gtgacatgtt tgttcggaag aacagaaaga tccataaaga
     2341 tgcagaatcg gcccagtcat gcacagattc cagtggaagc tttgccaagc tgaatggtct
     2401 ctttgacagc cccgtcaagg agtaccagca gaacatcgat tcacccaaac tgtacagcaa
     2461 cctgctgacc agtcggaagg agctgcctcc caacacggat ccaaagtcca tggccatgga
     2521 ccatcgaggc cagcctccag agctggctgc tctccccacg ccagagtcta cacctgtact
     2581 ccaccagaag accctgcagg ccatgaagag ccactccgat aaggcccatg gccatggtgc
     2641 ttcaaggaag gaacaccccc agttttttcc ttctagtcct ccaccccatt ccccgttaag
     2701 tcacgggcat attcccagtg ccatcgttct tccaaacgcc actcatgact acaacacatc
     2761 cttctcaaac tctaacgctc acaaagccga aaagaagctt cagaacgttg atcaccctct
     2821 cacaaagtca tccagtaaga gggaacaccg gcgctctgtg gactccagaa acaccctcaa
     2881 tgatctcttg aagcatctca atgacccaaa cagtaacgcc aaagccatca tgggagaaat
     2941 ccacatggcc catcagaccc tcatgctgga cccagtggga ccaatgtctg aggtcccacc
     3001 caaggttcct aaccgggagg catccctata ctcccccccc tcaacactcc ccagaaatag
     3061 tccaaccaag agagtagatg tccccaccac tcctggggtc ccaatgactt ctctggaaag
     3121 acaaaggggt tatcacaaaa actcctccca gaggcactct atatctgccg tgcctaaaaa
     3181 cttaaactca ccaaacggtg ttttgttatc tagacagccg agtatgaacc gtggaggata
     3241 tatgcccacc ccaacagggg cgaaggtgga ctatattcag gggacaccgg tgagtgtcca
     3301 tctgcagccc tccctctcca gacagagcag ctacaccagt aatggtaccc tacccaggac
     3361 gggactaaag aggacaccat ccttaaaacc tgatgtgcca ccaaagcctt cctttgttcc
     3421 tcaaaccaca tctgtcagac cactgaacaa atacacttac taggcctcaa gtgtgctatt
     3481 cctgtgtggc tttatcctgt ccctgctgtt tcgaggaagc tgtgagggta ccttaagacg
     3541 agatacctgc ttgtgtttta agagaaacaa gtagccaaag aaactctgta actttggtaa
     3601 caccagaact tgccacatgt agctactaca gcaaggcttc tgtgtacttg cgggaaagga
     3661 agggaggtcc tgctcattcc acgtcttttg tttgaagccg aagggctgtg tagcccggaa
     3721 gggctccctt cgccagtgtg aagaactgac acagtgctca gaagacctga gccaacactt
     3781 gaaatgggtt cagtgtagac tgccgttcag cgtggtcttc ccattaaatg tgaacatttc
     3841 aatatgtatg cattcacctt gcctcttgca caaatgtcaa aatggaaaga tgggaatgtc
     3901 tcaaaacaaa acgagcttgg agattgccaa gcagtttgct gaaaattcaa tctttggccc
     3961 aaactgtagc attttttttt ctgagtgtgg cactgttttt ttttttttaa tgccaccaac
     4021 aaactgttta gaggtgtgtg tgtgtgtgtg tgtgtgtgtg tgagagagag agagagagag
     4081 agagagagag agagagagag atatttaggt gcccatagca tcttttctac tttggagtgg
     4141 tttacagtaa gcatggctga acaagaacta aagtcctccc acaccagtcc attgagtttg
     4201 cctcccttaa gaaatagtca aggcttcttt gactgtcaag tgatgaacat aacctatgtg
     4261 atacccaatg tcagaacatt taagtgttct aagtaatttt gtgctgctat ccatcagaac
     4321 gtctattcca gtcttgccag cttaagaagt tagaggaatg aagaggtatc cttgatgtat
     4381 ctaccagtat tcagtagtaa catttacctg tccactgtga attaaagcct gaggcacgct
     4441 actcatcctt ggacacactt agaagcattt attttgattg tgttatttta ttttccatat
     4501 agaaaaactt ttcctctctt aaatcctctt acccccaacc cccaaggggc aagagaaggc
     4561 caaaactagg acaaaagaaa gagacagata gcaaagacag acaattggct tagcatggag
     4621 ggtctataaa gctctccgtg gtcctgtcct ccctctgtgt tgtgttctgt gaggattttc
     4681 tcctgagtca tgcaggcaat gacagtgaac tgtaaatacc acatgtgagt ttacctggat
     4741 ctgtgcattt tgtgccttat tcacgagagt ggtagaagtc ccgcggtatg ctgagtgttt
     4801 ccgctacaga gcgtcatttc ccatgtgcca cttgtaagtg ttttgcagcc agcacctgaa
     4861 gatttcttac agtcataaag caacctagag cgacttgttg ttgaacaacg ccgcccccct
     4921 ccctccagga tcagaagcag cacccaccct ttgccatgac aaacattcca cccctgctgt
     4981 tctgataatg tgaagtcaga tgagggttcc cagggaacgt ggcacctgtg gaaaccatgt
     5041 cgagtcattt ctatgtagct tggcagagcc cactgacggc tgaaggtgtg ttacctactg
     5101 atagctttgg ttaactcact gctcgtccac ccagtcattt acccaaccta atctagaaat
     5161 ttccacagcc aaggaaggcc cctgacccaa tcgggcaaag tccaggcgat atcttgggac
     5221 agtgacgacg gtatgcatta cctgggggag gacggggtac aaaacaccag atcattttta
     5281 tacaggatgt agaatactga tgcagttgat cttttccttc aagaacatgc ttttctattg
     5341 ggaaaaaaaa atgattccct gtgatctctt gtaagctcta aagctgaaac acttcagctt
     5401 tgcaactaaa aatattacag tttaataatc aattaaacca acccacaata agcactacac
     5461 atctgccacc caccaccttg ttcgcattct ccttaccaat attaatccca gcgtggtaac
     5521 tctgtgtgac gcccctcccc tgataacatt ttgtaacatt gtgctgcctt agagtttgta
     5581 ctgtgagttc tatcagtatt tatgttgaaa tttctaacat ggattctagt ctctattctg
     5641 ttaatttaat tttaaatgct ttatccattt gtgcaaaggt aaacacagat tgtatctttt
     5701 ttaatggtac ggcataaaaa aaaaataacc ctgaagtgaa gtggctctat actgttttat
     5761 agagtccttt aacgtgtata gatatcttgt aaacttgtat tgtggatgtg taaataatat
     5821 gtactttggg tttttaacac cgcatgtaaa gtcaaaataa aatatccaag tcat
//
