LOCUS       NM_011351               3612 bp    mRNA    linear   ROD 06-FEB-2024
DEFINITION  Mus musculus sema domain, transmembrane domain (TM), and
            cytoplasmic domain, (semaphorin) 6C (Sema6c), transcript variant 2,
            mRNA.
ACCESSION   NM_011351
VERSION     NM_011351.2
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 3612)
  AUTHORS   Yan,K., Bormuth,I., Bormuth,O., Tutukova,S., Renner,A., Bessa,P.,
            Schaub,T., Rosario,M. and Tarabykin,V.
  TITLE     TrkB-dependent EphrinA reverse signaling regulates callosal axon
            fasciculate growth downstream of Neurod2/6
  JOURNAL   Cereb Cortex 33 (5), 1752-1767 (2023)
   PUBMED   35462405
REFERENCE   2  (bases 1 to 3612)
  AUTHORS   Martins,L.F., Brambilla,I., Motta,A., de Pretis,S., Bhat,G.P.,
            Badaloni,A., Malpighi,C., Amin,N.D., Imai,F., Almeida,R.D.,
            Yoshida,Y., Pfaff,S.L. and Bonanomi,D.
  TITLE     Motor neurons use push-pull signals to direct vascular remodeling
            critical for their connectivity
  JOURNAL   Neuron 110 (24), 4090-4107 (2022)
   PUBMED   36240771
REFERENCE   3  (bases 1 to 3612)
  AUTHORS   Yan,W., Zhou,S., Shen,W., Cheng,J., Yuan,S., Ye,S., Jin,Y., Luo,A.
            and Wang,S.
  TITLE     Suppression of SEMA6C promotes preantral follicles atresia with
            decreased cell junctions in mice ovaries
  JOURNAL   J Cell Physiol 234 (4), 4934-4943 (2019)
   PUBMED   30256425
  REMARK    GeneRIF: Sema6c was involved in follicle development, and the
            suppression of SEMA6C led to cell junction defection by activating
            the PI3K/AKT pathway.
REFERENCE   4  (bases 1 to 3612)
  AUTHORS   McKey,J., Bunce,C., Batchvarov,I.S., Ornitz,D.M. and Capel,B.
  TITLE     Neural crest-derived neurons invade the ovary but not the testis
            during mouse gonad development
  JOURNAL   Proc Natl Acad Sci U S A 116 (12), 5570-5575 (2019)
   PUBMED   30819894
REFERENCE   5  (bases 1 to 3612)
  AUTHORS   Zhou,S., Yan,W., Shen,W., Cheng,J., Xi,Y., Yuan,S., Fu,F., Ding,T.,
            Luo,A. and Wang,S.
  TITLE     Low expression of SEMA6C accelerates the primordial follicle
            activation in the neonatal mouse ovary
  JOURNAL   J Cell Mol Med 22 (1), 486-496 (2018)
   PUBMED   28881413
  REMARK    GeneRIF: down-regulation of SEMA6C led to massive primordial
            follicle activation.
REFERENCE   6  (bases 1 to 3612)
  AUTHORS   Burgaya,F., Fontana,X., Martinez,A., Montolio,M., Mingorance,A.,
            Simo,S., del Rio,J.A. and Soriano,E.
  TITLE     Semaphorin 6C leads to GSK-3-dependent growth cone collapse and
            redistributes after entorhino-hippocampal axotomy
  JOURNAL   Mol Cell Neurosci 33 (3), 321-334 (2006)
   PUBMED   17029982
REFERENCE   7  (bases 1 to 3612)
  AUTHORS   Lillesaar,C. and Fried,K.
  TITLE     Neurites from trigeminal ganglion explants grown in vitro are
            repelled or attracted by tooth-related tissues depending on
            developmental stage
  JOURNAL   Neuroscience 125 (1), 149-161 (2004)
   PUBMED   15051154
REFERENCE   8  (bases 1 to 3612)
  AUTHORS   Dionne,M.S., Brunet,L.J., Eimon,P.M. and Harland,R.M.
  TITLE     Noggin is required for correct guidance of dorsal root ganglion
            axons
  JOURNAL   Dev Biol 251 (2), 283-293 (2002)
   PUBMED   12435358
REFERENCE   9  (bases 1 to 3612)
  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
REFERENCE   10 (bases 1 to 3612)
  AUTHORS   Kikuchi,K., Chedotal,A., Hanafusa,H., Ujimasa,Y., de Castro,F.,
            Goodman,C.S. and Kimura,T.
  TITLE     Cloning and characterization of a novel class VI semaphorin,
            semaphorin Y
  JOURNAL   Mol Cell Neurosci 13 (1), 9-23 (1999)
   PUBMED   10049528
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AK165085.1, AB013729.1 and AC140190.3.
            
            [WARNING] On Mar 20, 2024 this sequence was replaced by
            NM_011351.3.
            
            On Dec 28, 2012 this sequence version replaced NM_011351.1.
            
            Transcript Variant: This variant (2) differs in the 5' UTR and
            lacks an exon in the coding region but maintains the reading frame,
            compared to variant 1. The encoded isoform (2) is shorter, compared
            to isoform 1.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data because no single transcript from the same
            strain was available for the full length of the gene. The extent of
            this transcript is supported by transcript alignments and
            orthologous data.
            
            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 :: AB013729.1, SRR7345562.2996006.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-35                AK165085.1         207-241
            36-2878             AB013729.1         1-2843
            2879-3612           AC140190.3         59753-60486
FEATURES             Location/Qualifiers
     source          1..3612
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="3"
                     /map="3 40.74 cM"
     gene            1..3612
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /note="sema domain, transmembrane domain (TM), and
                     cytoplasmic domain, (semaphorin) 6C"
                     /db_xref="GeneID:20360"
                     /db_xref="MGI:MGI:1338032"
     exon            1..175
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /inference="alignment:Splign:2.1.0"
     CDS             55..2850
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /note="isoform 2 precursor is encoded by transcript
                     variant 2; semaphorin-6C; semaphorin-Y; Sema Y; m-Sema Y"
                     /codon_start=1
                     /product="semaphorin-6C isoform 2 precursor"
                     /protein_id="NP_035481.1"
                     /db_xref="CCDS:CCDS17604.1"
                     /db_xref="GeneID:20360"
                     /db_xref="MGI:MGI:1338032"
                     /translation="MPRAPHSMPLLLLLLLLSSLPQAQAAFPQDPTPLLTSDLQGASP
                     SSWFRGLEDDAVAAELGLDFQRFLTLNRTLLVAARDHVFSFDLQAQEEGEGLVPNKFL
                     TWRSQDMENCAVRGKLTDECYNYIRVLVPWNSQTLLACGTNSFSPMCRSYGITSLQQE
                     GEELSGQARCPFDATQSTVAIFAEGSLYSATAADFQASDAVVYRSLGPQPPLRSAKYD
                     SKWLREPHFVYALEHGEHVYFFFREVSVEDARLGRVQFSRVARVCKRDMGGSPRALDR
                     HWTSFLKLRLNCSVPGDSTFYFDVLQSLTGPVNLHGRSALFGVFTTQTNSIPGSAVCA
                     FYLDDIERGFEGKFKEQRSLDGAWTPVSEDKVPSPRPGSCAGVGAAASFSSSQDLPDD
                     VLLFIKAHPLLDPAVPPATHQPLLTLTSRALLTQVAVDGMAGPHRNTTVLFLGSNDGT
                     VLKVLPPGGQSLGSEPIVLEEIDAYSHARCSGKRSPRAARRIIGLELDTEGHRLFVAF
                     PGCIVYLSLSRCARHGACQRSCLASLDPYCGWHRSRGCMSIRGPGGTDVDLTGNQEST
                     EHGDCQDGATGSQSGPGDSAYGVRRDLSPASASRSIPIPLLLACVAAAFALGASVSGL
                     LVSCACRRANRRRSKDIETPGLPRPLSLRSLARLHGGGPEPPPPPKDGDAAQTPQLYT
                     TFLPPPDGGSPPELACLPTPETTPELPVKHLRASGGPWEWNQNGNNASEGPGRPPRGC
                     SGAGGPAPRVLVRPPPPGCPGQAVEVTTLEELLRYLHGPQPPRKGSEPLASAPFTSRP
                     PASEPGASLFVDSSPMPRDGVPPLRLDVPPEGKRAAPSGRPALSAPAPRLGVGGSRRL
                     PFPTHRAPPGLLTRVPSGGPARYSGGPGRHLLYLGRPEGHRGRSLKRVDVKSPLSPKP
                     PLASPPQPAPHGGHFNF"
     exon            176..290
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /inference="alignment:Splign:2.1.0"
     exon            291..354
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /inference="alignment:Splign:2.1.0"
     exon            355..411
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /inference="alignment:Splign:2.1.0"
     exon            412..513
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /inference="alignment:Splign:2.1.0"
     exon            514..604
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /inference="alignment:Splign:2.1.0"
     exon            605..724
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /inference="alignment:Splign:2.1.0"
     exon            725..813
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /inference="alignment:Splign:2.1.0"
     exon            814..1031
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /inference="alignment:Splign:2.1.0"
     exon            1032..1163
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /inference="alignment:Splign:2.1.0"
     exon            1164..1316
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /inference="alignment:Splign:2.1.0"
     exon            1317..1490
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /inference="alignment:Splign:2.1.0"
     exon            1491..1637
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /inference="alignment:Splign:2.1.0"
     exon            1638..1715
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /inference="alignment:Splign:2.1.0"
     exon            1716..1771
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /inference="alignment:Splign:2.1.0"
     exon            1772..1816
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /inference="alignment:Splign:2.1.0"
     exon            1817..3612
                     /gene="Sema6c"
                     /gene_synonym="mKIAA1869; Semay"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ggccggcaca tgggtgaggg ggtaccccct ggggcgtgag ctgccccgca caggatgccc
       61 cgtgcccccc actccatgcc cctgctgctc ctgctgctgt tgctgtcatc gctcccccaa
      121 gcccaggctg cctttcccca ggaccccacc cctctgttga cctctgacct tcaaggtgcc
      181 tctccatcat cctggttccg gggcctggag gacgatgctg tggctgcgga acttgggctg
      241 gactttcaga gattcctgac cttgaaccgg accttgcttg tggctgcccg ggatcacgtt
      301 ttctccttcg atcttcaagc ccaagaagaa ggggaggggc tggtgcccaa caagtttctg
      361 acatggagga gtcaagatat ggagaactgt gcagtccggg gaaagctgac ggacgaatgc
      421 tacaactaca tccgtgttct tgttccctgg aactcgcaga cacttcttgc ctgtggaaca
      481 aattccttca gccctatgtg ccgcagctat gggataacat ctctgcaaca ggagggtgag
      541 gagctgagtg ggcaggctcg atgccccttt gatgccaccc agtccactgt ggccatcttt
      601 gcagagggca gtttgtactc agccacagca gcagatttcc aggccagtga tgctgtagtt
      661 tacagaagtc ttggacctca gcctccactc cgttctgcaa agtatgactc caagtggctt
      721 cgagagccac actttgtcta tgcgttggag catggagagc acgtctactt cttcttccga
      781 gaagtctctg tggaggatgc ccgcttaggg agggtgcagt tttccagggt agcccgggta
      841 tgtaaacgtg acatgggtgg ctcacctcgg gccttggatc gccactggac atccttcctt
      901 aagctgaggc tcaactgctc tgtccctggg gactctacct tctactttga cgtcttacag
      961 tccttaactg ggcctgtgaa cctgcatggc cgctccgctc tctttggggt cttcactact
     1021 cagaccaata gcattcctgg gtctgcagtc tgcgccttct acctagatga tattgaacgt
     1081 ggctttgagg gcaagttcaa ggagcagagg agtctggatg gggcctggac tcctgtgtct
     1141 gaggacaagg tcccctcacc caggccaggg tcctgtgcag gtgtgggtgc agctgcctcg
     1201 ttctcctcct ctcaagacct acctgatgat gtcctgctct tcatcaaggc acacccgctg
     1261 ctggatcctg ctgtgccacc cgccacccat caaccgctcc tcactctgac tagcagggcc
     1321 ctgctgaccc aggtagctgt ggacggaatg gctggtcccc acagaaatac tactgtcctg
     1381 tttcttggct ccaacgatgg gacagtgctg aaggtgctac ctccaggggg tcagtctttg
     1441 ggctctgagc ctatcgtctt ggaagagatt gatgcctaca gccatgcccg gtgcagtggg
     1501 aagcggtcac cccgagctgc gcggcggatc atagggctgg agctggacac tgagggtcac
     1561 aggctttttg tggcctttcc tggatgtatc gtctacctct ctctcagccg gtgtgcccgg
     1621 catggagcat gtcagaggag ctgcctggct tctctggacc catactgtgg atggcatcga
     1681 tccagaggct gcatgagtat caggggacct ggtgggactg atgtcgatct gactgggaac
     1741 caggaatcca cagagcacgg tgactgccaa gatggagcga ccgggagtca gtctggccct
     1801 ggagattctg cttatggcgt gcgcagggac ctttccccag cctcagcctc ccgatccatt
     1861 cccatcccac tcctcctggc ctgtgtggcc gcggccttcg ctttgggcgc ctcagtctcc
     1921 ggtctcttgg tgtcctgtgc ttgtcgtcgc gcgaaccgcc gtcggagcaa ggacatcgag
     1981 accccggggc tgccgcgccc cctctccctt cgcagcctgg cccggctgca cggtggcggt
     2041 cctgagcccc cgcctccgcc caaggatgga gatgcagcgc aaacgcccca gctctacact
     2101 accttcctgc ctccgcccga cggcggatcc ccaccggagc tggcctgcct acccacgccg
     2161 gagacgacgc ccgagctgcc cgtgaagcac ctccgtgcct ccgggggccc ctgggaatgg
     2221 aaccagaatg ggaacaacgc ctcggagggc ccaggccgcc caccacgggg ctgcagcggg
     2281 gcgggcgggc ccgcaccgcg agtgctggtg aggccaccgc cccctggctg ccccgggcag
     2341 gcggtagagg tgaccacgct ggaggaactg ctgcgctacc tgcacggccc tcagccgccc
     2401 aggaagggta gcgaacctct cgcctccgcc ccgttcacct cccggccgcc cgcctcggag
     2461 cccggcgcct cgctgttcgt ggactccagc ccgatgccgc gggatggcgt tccgccgctc
     2521 aggctcgacg tgccacccga aggcaagcgc gctgccccga gcgggcggcc tgctctctcg
     2581 gccccagccc cgcgcctggg tgtcggcggc agccgccgat tgccctttcc cacacaccgg
     2641 gcgcccccgg gcctgctcac gcgagtgccc tcgggaggcc cggccaggta ctccgggggg
     2701 cccgggaggc acctcctgta cctgggccgg cccgaaggcc atcgcggccg ctccctgaag
     2761 agggtggacg tgaagtctcc gctgtcgccc aagccgcccc tcgcctcccc gccgcagccc
     2821 gccccgcacg gtggtcattt caacttctga cggaagctgc tcgcgcccgc ccgtcgaggc
     2881 gctggaggcc gctggccttc ccggactccg agactctccc ggggcccccc ctctcgcctc
     2941 ggtttattta ttgacttgtc tttcccctgt cctttggcga ggaactcgcc cctcggagcg
     3001 ccagcatttc aggggacctg gccgactccc actccccgct cccttccagc cacgctgcct
     3061 taagtcgccg ctccggactc ccgcggactg agccccgggc gggccggccg gggctggagc
     3121 cgcgcgctgt gtagagtcct cgggcctccc ggggccggga cgtgcctcct cctactgtgt
     3181 aggagccccc tgcttcccaa tacagccgtg tccccaagcc gctgcctgac tttcctcgcg
     3241 gtgcgggagg ggaaggaggg cgcggcgccc ggccctctgg gtaaccgtgc tcctgaaagt
     3301 cggcctccac tgcagctcgg cccccaagtc tctccggagc aattggcttg gcgggtgtcc
     3361 caccggggtt aatcaggaaa ggtttcctga aggaggcaat caaagacctg gtgtgtgtgg
     3421 gctgagccgg ggcccaggag agcagtgggt actgattggg ggtgccgggg aaggcgctca
     3481 gcacgtttct ggatagaggt caggcacctt tccacggcct acactctggg gtgggagagg
     3541 gaacttttgg agaaataaaa cgaagctgct gcgtgatttg aatttcacat cagcaagtct
     3601 tgtcctagag ag
//
