LOCUS       XM_039108604            4085 bp    mRNA    linear   ROD 11-JUN-2023
DEFINITION  PREDICTED: Rattus norvegicus collagen type XXVIII alpha 1 chain
            (Col28a1), transcript variant X1, mRNA.
ACCESSION   XM_039108604
VERSION     XM_039108604.1
DBLINK      BioProject: PRJNA677964
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.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_051339.1) annotated using gene prediction method: Gnomon,
            supported by EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            [WARNING] On Feb 22, 2024 this sequence was replaced by
            XM_039108604.2.
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI RefSeq
            Annotation Status           :: Updated annotation
            Annotation Name             :: GCF_015227675.2-RS_2023_06
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 10.1
            Annotation Method           :: Best-placed RefSeq; Gnomon;
                                           cmsearch; tRNAscan-SE
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            Annotation Date             :: 06/06/2023
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..4085
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN/NHsdMcwi"
                     /db_xref="taxon:10116"
                     /chromosome="4"
                     /sex="male"
                     /tissue_type="kidney"
                     /geo_loc_name="USA: Wisconsin, Milwaukee, Medical College
                     of Wisconsin"
                     /collection_date="2019-03-08"
                     /collected_by="Rebecca Schilling"
     gene            1..4085
                     /gene="Col28a1"
                     /note="collagen type XXVIII alpha 1 chain; Derived by
                     automated computational analysis using gene prediction
                     method: Gnomon. Supporting evidence includes similarity
                     to: 9 ESTs, 2 Proteins, and 100% coverage of the annotated
                     genomic feature by RNAseq alignments, including 2 samples
                     with support for all annotated introns"
                     /db_xref="GeneID:312115"
                     /db_xref="RGD:1564680"
     CDS             201..3626
                     /gene="Col28a1"
                     /codon_start=1
                     /product="collagen alpha-1(XXVIII) chain isoform X1"
                     /protein_id="XP_038964532.1"
                     /db_xref="GeneID:312115"
                     /db_xref="RGD:1564680"
                     /translation="MRKRDVAFCLLLLPAFMTQAVYGQRKKGPKPNILARKNDFQDAI
                     CFIDVVFILDSSESSKIVLFDNQKDFVDSLSEKLFQLTPGHSLRYDIKLAALQFSSSV
                     QIDPPFSSWKDLRTFKQRVKSLNLIGQGTFSYYAISNATRLLKKEGRKDGVKVALLMT
                     DGIDHPKSPDVQSISEDARISGISFITVGLSTVVNEAKLRLISGDSSNEPVLLLSDPT
                     LVDKIRGRLDVLFERKCEHKICECEKGDPGDPGPPGTHGNPGIKGERGPKGNPGDAQK
                     GETGERGPVGIPGYKGDKGERGECGKPGMKGDKGPAGPYGPKGPRGIQGIGGPPGDPG
                     PKGFQGNKGEPGPPGPYGPPGAPGIGQQGVKGERGQEGRTGAPGPIGIGEPGQPGPRG
                     PEGAPGERGLPGEGVPGPKGEKGSEGPTGPQGLQGLSIKGDKGDLGPVGPQGPAGIPG
                     IGSQGEQGIQGPTGPPGPQGPPGQGSPGPKGEVGRMGPTGPRGPMGIGIQGPKGEPGT
                     VGLPGQPGVPGEDGASGKKGEAGLPGTRGPEGMPGKGQPGPKGDEGKKGSKGNQGQRG
                     FPGPEGPKGEPGIMGPFGMPGASIPGPSGPKGDRGGPGMPGLKGEPGLSVRGPKGAQG
                     PRGPVGAPGLKGDGYPGVAGPRGLPGPPGPMGLRGVGDTGAKGEPGVRGPPGPSGPRG
                     IGIQGPKGDTGQKGLPGPPGPPGYGSQGIKGEQGPQGFPGSKGTVGLGLPGQKGEHGE
                     RGDVGRKGEKGDIGEPGSPGKQGLQGPKGDLGLTKEEIIKLIIEICGCGPKCKETPLE
                     LVFVIDSSESVGPENFQIIQNFVKTLADRVALDLGTARIGIINYSHKVEKVASLKQFS
                     SKDDFKLVVDNMQYLGEGTYTATALQAANDMFKEARPGVKKVALVITDGQTDSRDKRK
                     LADVVKDANDSKVEIFVIGVVKKDDPNFEIFHKEMNLIATDSEHVYQFDDFFTLQDTL
                     KQKLSKKICEDFDSYLIQVFGSSSFQPEFGVSEREVNISTPKPTKEISKLFNISRGQN
                     EETEPSVLTEAGNLAIPTPPEATNTLKPLLSSPERVEARTPNPNLLQSEKSLYKDPRC
                     EEALKPGNCGDYVVRWYYDKQVNSCARFWFSGCNGSGNRFHSEKECQETCIKQ"
ORIGIN      
        1 gcctgaccac tctagtaaac aagaataaga gaatgccaaa acttcaaaag caaagacaat
       61 tatttcccag agcacagaac aatatctaat agctaactaa taattgtcct tgctgtgggc
      121 atctgctgca ctgttctctt tcctgtctga cagacttcct aaggtgttac caggcagatg
      181 aatttttacc aactaccata atgaggaaaa gagacgttgc cttctgtctc ctgcttttgc
      241 cagcttttat gactcaagca gtatatggac aaagaaagaa aggaccaaag ccaaacatac
      301 ttgcaaggaa aaatgacttt caggatgcca tttgcttcat agatgttgtc tttatcttgg
      361 acagctctga aagctctaaa attgtgctct ttgataatca gaaagatttt gtggacagct
      421 tgagcgagaa gcttttccag ttgactcctg gtcactcatt aagatatgac atcaagctgg
      481 cagcccttca gtttagcagt tcggtacaga ttgatccacc attttcctct tggaaggatc
      541 tccggacatt taagcagcgg gtcaagtctt tgaatttaat tgggcaaggt accttttctt
      601 actatgccat ctccaatgcc acaaggctac ttaaaaaaga aggacgtaaa gatggcgtga
      661 aagtggctct gctgatgact gatggcattg atcatcccaa gagtccagat gtccaaagta
      721 tttctgaaga tgctagaatt tcgggaatat catttatcac tgttggactt tccactgtgg
      781 tcaatgaagc caaacttcgt ttgatatctg gggactcttc caatgaacct gttctactat
      841 taagtgatcc aacacttgta gacaaaattc ggggacgcct ggatgtctta tttgaaagga
      901 agtgtgaaca caagatctgt gaatgtgaga agggagatcc aggcgaccca gggcctcctg
      961 gtacccatgg aaaccctggt atcaaaggtg agcgaggacc aaaaggaaat ccgggtgatg
     1021 ctcagaaagg agaaactgga gaaagagggc ctgtgggaat ccctgggtac aagggtgaca
     1081 agggtgaacg aggagaatgt gggaaaccag gaatgaaagg tgacaaagga cctgcagggc
     1141 catatggacc aaaaggacca agaggaattc agggcattgg tggacctcca ggggatccag
     1201 gcccaaaggg atttcaagga aataagggtg agccaggtcc tcctggtcct tatggtcctc
     1261 caggagcccc tggtattgga cagcaaggtg ttaagggtga aaggggccag gaaggaagga
     1321 caggagctcc aggaccgatt ggaattggtg aacccggaca gccaggtccc cgtggtcctg
     1381 aaggagcacc aggagagagg ggcctaccag gagaaggagt tccaggaccg aagggggaaa
     1441 agggttctga aggaccaact ggcccacaag gattacaagg cctgtcaatc aaaggggata
     1501 agggggattt gggacctgtg ggaccccagg gaccagcggg tattcctggc attggaagtc
     1561 aaggcgagca ggggatccaa ggtccaactg gtccacctgg tccacaagga cccccaggac
     1621 aaggctcacc tggtcctaag ggagaagtag gccggatggg acccacaggg cctagaggac
     1681 caatgggaat tggaatacag ggtccaaagg gggagccagg cacagtaggg ctcccaggac
     1741 agccgggagt cccaggggaa gatggggcct ctggaaagaa gggagaagct gggcttccag
     1801 gaacaagagg cccagaagga atgcctggaa aaggacagcc tggccccaag ggtgatgaag
     1861 gaaagaaagg gagcaaagga aatcaaggac agagggggtt tccaggaccc gaagggccaa
     1921 agggagaacc gggcattatg ggcccctttg gaatgcctgg agcatcaatt cctggaccat
     1981 ctggaccaaa gggagaccga ggaggacctg gaatgcctgg tctcaaggga gaacctggac
     2041 tttctgttcg aggaccaaag ggtgcccagg gtccccgggg accagtgggt gctccaggac
     2101 tcaaaggtga tggctatcct ggtgtggctg gacctcgagg attgccagga ccccctggac
     2161 caatgggctt acgtggtgtg ggagacactg gagcgaaggg agagccaggg gtcagaggcc
     2221 ctccaggtcc ctctggtcct cggggcatag gaatccaagg accgaagggt gatactgggc
     2281 aaaagggcct gcctggccct cctgggcccc ctggctatgg atcacaagga attaaagggg
     2341 aacaaggacc tcaaggtttc ccaggatcaa agggcacagt gggcctcggc ctccctggtc
     2401 agaagggaga acatggagaa cggggcgatg tggggaggaa aggcgaaaag ggagacatcg
     2461 gagagcctgg atctccagga aaacaggggt tacaaggacc gaaaggagac ctgggactca
     2521 cgaaagaaga aattatcaaa cttatcattg aaatatgtgg ttgtgggccc aaatgcaaag
     2581 agactccact ggagttggtg tttgtgatag acagttcgga aagtgtggga ccagagaact
     2641 ttcagatcat ccaaaatttt gtgaagactc tggctgaccg ggtggccttg gatcttggca
     2701 cagcccgcat aggaataatc aactatagcc acaaggtgga gaaggtagct agcctgaagc
     2761 agttctccag caaggatgat ttcaagctgg tggtggacaa catgcagtat ctgggggaag
     2821 ggacctacac agccactgct cttcaagcag ccaatgacat gttcaaggag gcaaggccag
     2881 gggtaaagaa ggtagccttg gtgatcactg atggacagac agattcccga gataaaagga
     2941 aactggcaga tgtggtgaag gatgccaatg actccaaagt ggaaatattt gtgattgggg
     3001 tggtaaagaa ggatgacccc aactttgaaa tttttcacaa agaaatgaat ctcattgcta
     3061 ctgactcaga acacgtgtat cagtttgatg acttctttac cctgcaagat actctgaagc
     3121 aaaagctgtc taaaaaaatt tgtgaagatt ttgactccta tctcatacaa gtttttggat
     3181 catcatcttt tcaacctgaa tttggggtgt cagagcgaga ggtcaacata tccactccaa
     3241 agcctacaaa agaaatttct aagttgttta atatctctag aggtcaaaat gaagagactg
     3301 aaccttctgt gttgactgag gctggtaact tggccatccc aaccccacct gaggccacca
     3361 atacacttaa gccattgctc agcagccctg aaagagtgga agcaaggact ccaaatccta
     3421 atttgttgca gtcagaaaaa tctctgtaca aagatccaag atgcgaggag gccctgaagc
     3481 ctggaaactg tggcgactat gtggttcgct ggtattatga caaacaggtc aactcttgtg
     3541 ctcgcttttg gttcagtggc tgcaatggct caggaaacag attccacagt gaaaaggaat
     3601 gtcaagaaac ctgcattaaa caatgaacaa gcacactaac gggcttcaag cagaggttta
     3661 gaaagagcct gacacatctg ggcatacagg aagtagcgat agttcataaa tcatagagcc
     3721 ctctcgacca ccacttaggg atgtagtctg attaactgtc tacaccgctg aagggtggaa
     3781 ggactaggga cctggactcc gctgtgtaac tttagaacac agtctttatc tgtttcacaa
     3841 cctgcagtgt gaccctgatt cctcctcatt ctaatacaca tacaatggca gttcacacgc
     3901 caccctccct gtgcccgcac tcttacagca ccttcacagt ggtttgtgag gagaaggaat
     3961 ttggtttgaa cattggaggg atgtcttcgt gtgagtgctg gaatagtggg gggagttatg
     4021 agtttagccc aaagtgatag tagagagaaa tacgtctgaa ataaactcac taattgtatg
     4081 ataaa
//
