LOCUS       NM_007731               3164 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus collagen, type XIII, alpha 1 (Col13a1), transcript
            variant 1, mRNA.
ACCESSION   NM_007731
VERSION     NM_007731.3
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 3164)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   2  (bases 1 to 3164)
  AUTHORS   Kemppainen,A.V., Finnila,M.A., Heikkinen,A., Haronen,H., Izzi,V.,
            Kauppinen,S., Saarakkala,S., Pihlajaniemi,T. and Koivunen,J.
  TITLE     The CMS19 disease model specifies a pivotal role for collagen XIII
            in bone homeostasis
  JOURNAL   Sci Rep 12 (1), 5866 (2022)
   PUBMED   35393492
  REMARK    GeneRIF: The CMS19 disease model specifies a pivotal role for
            collagen XIII in bone homeostasis.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3164)
  AUTHORS   Bedogni,F. and Hevner,R.F.
  TITLE     Cell-Type-Specific Gene Expression in Developing Mouse Neocortex:
            Intermediate Progenitors Implicated in Axon Development
  JOURNAL   Front Mol Neurosci 14, 686034 (2021)
   PUBMED   34321999
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3164)
  AUTHORS   Zhou,C., Chen,D., Ren,J., Huang,D., Li,R., Luo,H., Guan,C., Cao,Y.
            and Wang,W.
  TITLE     FGF8 and BMP2 mediated dynamic regulation of dental mesenchyme
            proliferation and differentiation via Lhx8/Suv39h1 complex
  JOURNAL   J Cell Mol Med 25 (6), 3051-3062 (2021)
   PUBMED   33580754
REFERENCE   5  (bases 1 to 3164)
  AUTHORS   Munezane,H., Oizumi,H., Wakabayashi,T., Nishio,S., Hirasawa,T.,
            Sato,T., Harada,A., Yoshida,T., Eguchi,T., Yamanashi,Y.,
            Hashimoto,T. and Iwatsubo,T.
  TITLE     Roles of Collagen XXV and Its Putative Receptors PTPsigma/delta in
            Intramuscular Motor Innervation and Congenital Cranial
            Dysinnervation Disorder
  JOURNAL   Cell Rep 29 (13), 4362-4376 (2019)
   PUBMED   31875546
REFERENCE   6  (bases 1 to 3164)
  AUTHORS   Sallinen,R., Latvanlehto,A., Kvist,A.P., Rehn,M., Eerola,I.,
            Chu,M.L., Bonaldo,P., Saitta,B., Bressan,G.M., Pihlajaniemi,T.,
            Vuorio,E., Palotie,A., Wessman,M. and Horelli-Kuitunen,N.
  TITLE     Physical mapping of mouse collagen genes on chromosome 10 by
            high-resolution FISH
  JOURNAL   Mamm Genome 12 (5), 340-346 (2001)
   PUBMED   11331940
REFERENCE   7  (bases 1 to 3164)
  AUTHORS   Mrug,M., Stockwin,J., Wuthrich,R.P., Gasser,D.L. and
            Guay-Woodford,L.M.
  TITLE     Mapping of mouse alpha 1(XIII) collagen to chromosome 10 and its
            exclusion as a kd candidate gene
  JOURNAL   Biochem Genet 38 (9-10), 337-340 (2000)
   PUBMED   11129527
REFERENCE   8  (bases 1 to 3164)
  AUTHORS   Kvist,A.P., Latvanlehto,A., Sund,M., Horelli-Kuitunen,N., Rehn,M.,
            Palotie,A., Beier,D. and Pihlajaniemi,T.
  TITLE     Complete exon-intron organization and chromosomal location of the
            gene for mouse type XIII collagen (col13a1) and comparison with its
            human homologue
  JOURNAL   Matrix Biol 18 (3), 261-274 (1999)
   PUBMED   10429945
REFERENCE   9  (bases 1 to 3164)
  AUTHORS   Hagg,P., Rehn,M., Huhtala,P., Vaisanen,T., Tamminen,M. and
            Pihlajaniemi,T.
  TITLE     Type XIII collagen is identified as a plasma membrane protein
  JOURNAL   J Biol Chem 273 (25), 15590-15597 (1998)
   PUBMED   9624150
REFERENCE   10 (bases 1 to 3164)
  AUTHORS   Peltonen,S., Rehn,M. and Pihlajaniemi,T.
  TITLE     Alternative splicing of mouse alpha1(XIII) collagen RNAs results in
            at least 17 different transcripts, predicting alpha1(XIII) collagen
            chains with length varying between 651 and 710 amino acid residues
  JOURNAL   DNA Cell Biol 16 (2), 227-234 (1997)
   PUBMED   9052743
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC164702.2 and AC122315.5.
            
            On Feb 10, 2015 this sequence version replaced NM_007731.2.
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (1).
            
            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 :: U30292.1 [ECO:0000332]
            RNAseq introns              :: partial sample support SAMN00849387,
                                           SAMN01164134 [ECO:0000350]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-760               AC164702.2         112304-113063       c
            761-830             AC164702.2         95244-95313         c
            831-838             AC164702.2         54044-54051         c
            839-865             AC164702.2         45662-45688         c
            866-901             AC164702.2         42637-42672         c
            902-928             AC164702.2         39209-39235         c
            929-979             AC164702.2         37045-37095         c
            980-1015            AC164702.2         31094-31129         c
            1016-1042           AC122315.5         206-232
            1043-1069           AC122315.5         1218-1244
            1070-1096           AC122315.5         2518-2544
            1097-1123           AC122315.5         2637-2663
            1124-1150           AC122315.5         3596-3622
            1151-1207           AC122315.5         5314-5370
            1208-1273           AC122315.5         6434-6499
            1274-1381           AC122315.5         9222-9329
            1382-1408           AC122315.5         10864-10890
            1409-1444           AC122315.5         11867-11902
            1445-1489           AC122315.5         20266-20310
            1490-1522           AC122315.5         21808-21840
            1523-1549           AC122315.5         22558-22584
            1550-1594           AC122315.5         25244-25288
            1595-1681           AC122315.5         26331-26417
            1682-1735           AC122315.5         27001-27054
            1736-1780           AC122315.5         28703-28747
            1781-1849           AC122315.5         29058-29126
            1850-1873           AC122315.5         30164-30187
            1874-1936           AC122315.5         32575-32637
            1937-1981           AC122315.5         33490-33534
            1982-2125           AC122315.5         33807-33950
            2126-2224           AC122315.5         34465-34563
            2225-2269           AC122315.5         36094-36138
            2270-2311           AC122315.5         38949-38990
            2312-2338           AC122315.5         39770-39796
            2339-2419           AC122315.5         40160-40240
            2420-2473           AC122315.5         45413-45466
            2474-2527           AC122315.5         46368-46421
            2528-2563           AC122315.5         47367-47402
            2564-2650           AC122315.5         52924-53010
            2651-2689           AC122315.5         56462-56500
            2690-3164           AC122315.5         57870-58344
FEATURES             Location/Qualifiers
     source          1..3164
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="10"
                     /map="10 32.29 cM"
     gene            1..3164
                     /gene="Col13a1"
                     /note="collagen, type XIII, alpha 1"
                     /db_xref="GeneID:12817"
                     /db_xref="MGI:MGI:1277201"
     exon            1..760
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     CDS             473..2692
                     /gene="Col13a1"
                     /note="isoform 1 is encoded by transcript variant 1;
                     collagen alpha-1(XIII) chain; procollagen, type XIII,
                     alpha 1; type XIII collagen"
                     /codon_start=1
                     /product="collagen alpha-1(XIII) chain isoform 1"
                     /protein_id="NP_031757.1"
                     /db_xref="CCDS:CCDS35918.1"
                     /db_xref="GeneID:12817"
                     /db_xref="MGI:MGI:1277201"
                     /translation="MVAERTRKAAASGSRGPGELGAPGPGTVALAEQCARLPSPGCCG
                     LLALALCSLALSLLAHFRTAELQARVLRLEAERGEQQMEKAILGRVNQLLDEKWKFYS
                     RRRREAPKMSPGCNCPPGPPGPTGRPGLPGDKGAIGMPGRVGIKGQPGEKGAPGDAGM
                     SIVGPRGPPGQPGTRGFPGFPGPIGLDGRPGHPGPKGEMGLVGPRGQPGPQGQKGEKG
                     QCGEYPHREYPGGMLAALRSNPIMSLKLLPLLNSVRLAPPPVIKRRTFQGEQSQTGIQ
                     GPPGPPGPPGPSGPLGHPGLPGPIGPPGLPGPPGPKGDPGIQGYHGRKGERGMPGMPG
                     KHGAKGVPGIAVAGMKGEPGTPGTKGEKGAAGSPGLLGQKGEKGDAGNAIGGGRGEPG
                     PPGLPGPPGPKGEAGVDGQAGPPGQQGDKGQPGAAGEQGPSGPKGAKGEPGKGEMVDY
                     NGSINEALQEIRTLALMGPPGLPGQTGPPGPPGTPGQRGEIGLPGPPGHDGDKGPRGK
                     PGDMGPAGPQGPPGKDGPPGMKGEVGPPGSPGEKGETGQAGPQGLDGPTGEKGEPGDE
                     GRPGATGLPGPIGLPGFTGEKGEAGEKGDPGAEVPGPPGPEGPPGPPGLQGFPGPKGE
                     AGLEGSKGEKGSQGEKGDRGPLGLPGTPGPIGVPGPAGPKGERGSKGDPGMTGPTGAA
                     GLPGLHGPPGDKGNRGERGKKGSRGPKGDKGDQGAPGLDAPCPLGEDGLPVQGCWNK"
     exon            761..830
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            831..838
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            839..865
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            866..901
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            902..928
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            929..979
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            980..1015
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1016..1042
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1043..1069
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1070..1096
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1097..1123
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1124..1150
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1151..1207
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1208..1273
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1274..1381
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1382..1408
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1409..1444
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1445..1489
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1490..1522
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1523..1549
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1550..1594
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1595..1681
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1682..1735
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1736..1780
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1781..1849
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1850..1873
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1874..1936
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1937..1981
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1982..2125
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            2126..2224
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            2225..2269
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            2270..2311
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            2312..2338
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            2339..2419
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            2420..2473
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            2474..2527
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            2528..2563
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            2564..2650
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            2651..2689
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     exon            2690..3164
                     /gene="Col13a1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2879..2884
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Col13a1"
                     /note="hexamer: TATAAA"
     polyA_site      2899
                     /gene="Col13a1"
                     /note="major polyA site"
     regulatory      3144..3149
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Col13a1"
                     /note="hexamer: AATAAA"
     polyA_site      3162
                     /gene="Col13a1"
                     /note="major polyA site"
ORIGIN      
        1 ggctgtgtca agttacagag gcgccagaat cggccccagc gcggctcact gcagccacga
       61 cccacctctg cccatggggc cctgcatgcg tgccccttcg cccggggact gacacccgtt
      121 ctccccggag acacaaaaca cccagaagga ccccgagcgt cgcaccagcc cgagaactct
      181 gcagaagaga gaagggaaag agtggggagc ggggccagat ccccgaactt ggaacattct
      241 tcgaaataac ttttttctta ctttggcgta ctccgatcgc gtctgctggt ggctcttggc
      301 tgctcccgac tccgactgct cattttcggt cctctttggc gagcaaagga aagggacgtc
      361 ctctagccac gttaaccccc tttccccttg cctctcagtt tggatcgcgc ctcttggatc
      421 tcgtttttat ttattctatt tatttattta ttggctctca agacgcgagg gcatggtggc
      481 ggagcgcacc cgcaaagcgg cagcctctgg cagccgcggc cctggggagc tgggcgctcc
      541 ggggcccggg acagtggcgc tggctgagca gtgcgctagg ctgccgagcc ccgggtgctg
      601 cggactgctg gctctagcgc tgtgttcgct ggcgctcagc ctgctcgccc actttcggac
      661 cgcggagctg caggcccggg tgctgcgctt ggaagcagag cgcggggagc agcagatgga
      721 gaaagctatt ttgggacgag tcaaccaact gctggacgag aaatggaagt tctactcgcg
      781 taggcgccgg gaagccccga agatgtctcc aggatgtaac tgcccaccag gacctcctgg
      841 tcccactgga agacctggac tcccagggga caagggtgcc atcgggatgc ctggacgtgt
      901 gggtatcaaa ggtcaaccag gcgagaaggg tgcccctgga gatgcgggga tgtccatcgt
      961 cgggcctcga ggcccccctg gccagcctgg tacccgaggt ttccctggat tcccgggtcc
     1021 cattggtctt gacggcaggc cgggccaccc cggacctaaa ggggagatgg gcctggtggg
     1081 tcctcgagga caaccgggac ctcagggaca aaagggagaa aagggtcagt gtggagagta
     1141 cccacacagg gagtacccag gcggcatgct agcagctctg cgctccaacc cgataatgtc
     1201 cctaaagctg ttgcctctac tcaattcagt gcggctggct ccacccccag tcattaaaag
     1261 gcggaccttt cagggggaac aaagtcagac tggcatccaa ggccctccag ggccaccggg
     1321 ccccccagga ccaagtggcc ctctgggaca cccaggactg ccagggccta tagggccacc
     1381 tggtttaccg gggcctcctg gaccaaaggg agacccaggg atccagggct atcatggccg
     1441 caagggagag cggggcatgc caggaatgcc aggcaagcac ggagccaagg gggttcctgg
     1501 gattgccgtg gctgggatga agggtgagcc agggacgcca ggaaccaagg gtgagaaggg
     1561 tgcagcaggc tcccctggcc tcctggggca gaagggagaa aaaggtgatg ctggcaatgc
     1621 catcggagga ggcagggggg agcctggccc cccggggctc cctgggcccc ctgggccaaa
     1681 gggagaagct ggtgttgatg gccaggctgg gcccccagga cagcaaggag acaaggggca
     1741 gccaggagca gctggtgaac agggaccctc tggccccaag ggtgccaagg gtgaacccgg
     1801 caaaggagag atggtggatt ataatggcag catcaacgag gcgcttcagg agatcaggac
     1861 gctggccttg atggggcctc ctggtcttcc tggacaaaca ggcccacccg gacctccagg
     1921 gactccaggc caaagggggg agattggact gccaggccct ccaggacacg atggggacaa
     1981 ggggcctcga ggaaaaccag gagatatggg gccggctggt cctcaaggac ccccaggaaa
     2041 ggatgggcct ccaggaatga agggagaagt cggaccccca ggaagtccag gggagaaagg
     2101 ggagacagga caagcaggcc cccagggtct agacggccca actggggaga aaggagaacc
     2161 aggtgacgaa gggaggcctg gagcgacagg attgcctggg cccatcgggc tcccgggatt
     2221 cacaggagag aaaggagaag ctggggagaa aggcgacccg ggagcagagg ttcctgggcc
     2281 gccagggcca gagggtcctc caggacctcc gggcctccaa ggttttcctg gaccaaaggg
     2341 agaagcaggc ctagagggca gtaaaggaga gaagggctcc cagggagaaa aaggagaccg
     2401 ggggcctctg ggattgcctg gtactccagg accaatcggg gttccaggcc cagccggacc
     2461 aaagggcgaa aggggcagca aaggcgaccc agggatgacg ggaccaacgg gagcagctgg
     2521 gctgcctggt ttacatggac cacccgggga caaaggaaac cggggggaga gggggaagaa
     2581 gggctctaga gggcctaaag gggacaaggg ggaccaagga gcacctggac tagacgcccc
     2641 ctgcccgctg ggagaagatg gcttaccagt ccaaggctgc tggaacaagt gatgcctcta
     2701 acctgggact ggcctgtgtg tgtttgtata taggatattt atttttatac agttttcacc
     2761 ttttgaaaat gcccaaacta tgatgcatct tacagatcat taagaaagaa agaagaaaag
     2821 cctgcagatt ttgtacagga aataacccct ttcccttttt gtttacaaga catttttgta
     2881 taaatctgtt tctaatacac tttctgtctg tgcgtctgct cctaatgttg catgatattt
     2941 gtgcacactt actaaatatc acagcttcat aaattattgt gttccagtgc caaagggggc
     3001 ccaccagcac agaggtgctg tgagcttgtg tgtgaattca cacacacaca caaaaaaagt
     3061 ggaggtcggt ggtgtttgcc agactacatg tgtctgacaa tattttacat tttaactgac
     3121 ggtcattatt ataagaaaaa aataataaaa cgtggcaatt catg
//
