LOCUS       XM_039082612            8502 bp    mRNA    linear   ROD 11-JUN-2023
DEFINITION  PREDICTED: Rattus norvegicus collagen type VI alpha 5 chain
            (Col6a5), transcript variant X2, mRNA.
ACCESSION   XM_039082612
VERSION     XM_039082612.1
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_051343.1) 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_039082612.2.
            
            ##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..8502
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN/NHsdMcwi"
                     /db_xref="taxon:10116"
                     /chromosome="8"
                     /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..8502
                     /gene="Col6a5"
                     /note="collagen type VI alpha 5 chain; Derived by
                     automated computational analysis using gene prediction
                     method: Gnomon. Supporting evidence includes similarity
                     to: 8 ESTs, 2 Proteins, and 100% coverage of the annotated
                     genomic feature by RNAseq alignments, including 8 samples
                     with support for all annotated introns"
                     /db_xref="GeneID:501047"
                     /db_xref="RGD:1565804"
     CDS             214..8127
                     /gene="Col6a5"
                     /codon_start=1
                     /product="collagen alpha-5(VI) chain isoform X1"
                     /protein_id="XP_038938540.1"
                     /db_xref="GeneID:501047"
                     /db_xref="RGD:1565804"
                     /translation="MKLQLIVFVLILWTETLSDQSPGTGPGPKYADVVFLVDSSDYLG
                     IKSFPFVRTFLNKIISSLPVEANKYRVALAQYSDALHNEFHLGAFKNRNPMLNHLKKN
                     FGFIGGSLKIGNALQEAHRTYFSAPTNGRDKKQFPPILVVLASAESEDDVEEASKALR
                     EDGVKIISVGVQKASEEDLKAMATPQFHFNLRTARDLSLFAPDMAQIIQDVTQYREGT
                     TVAVVTDVAPTTPEPLITPAALTTPANNVDETVPFLASCQKDSLADLIFLVDESVGTT
                     QNLRDLQNFLENVTSSVDVKDNCMRLGLMSFSDKARTVSSLKSSTSQSDFQQQIQKLS
                     LRTGASNVGAAIEHMRTEGFSESSGSRKAQGVPQIAVLVTHRASDDAVREAALDLRLQ
                     GVTMFAMSVQGANNTQLEDIVSYPSRQSISTHSSYKHLESYSGNFLKKIHNEIWTQVS
                     THAEQMELDKTGCVDTKEADIYFLIDGSSSIRRKEFEQIQIFMSSVVDMFPIGPNNVR
                     VGVVQYSHRNEVEFPVSQYTKGIELRKAVWNIKQLKGGTFTGKALDFILPIIKKGKSE
                     RIHEVPCYLIVLTDGKSNDSVLEPANRLRAEHITIHAVGIGEANKTQLQQIAGKDERV
                     SFGQNFDSLKYIKNEIVHRICSDKGCEDMKADIMFLVDSSGSIGLTNFEKMKTFMKNL
                     VGKIEIGADRSQVGVVQFSDYNKEEFQLNKYSTREEVYAAIDGMSPINRNTLTGSALT
                     FVNEYFDISKGGRPQVRKFLILLTDGEAQDEVGGPAMALRSKSVTIFSVGVYGANRTQ
                     LEEISGEGSLVFHVENFDHLKTIESKLIFRVCALHDCKRIELLDIVFVLDHSGSIGPR
                     EQESMINLTIHLVEKADVGRDRVQFGALMYSNNPEILFYLNTYSSRSAITEHLKRPRD
                     TRGDTYTAKALQHANILFMEEHGSRLKQNVRQLMIVITDGESHDRDKLNDTARELRDK
                     GITIFAVGVGRANQDELETMAGKKENTIHVDNFDKLRDIYLPLQEILCNNSQETCNLP
                     EADVIFLCDGSDMVSDSDFVAMTTFLSDLIDNFDIESQRLKIGMAQYGSRYQEIIELE
                     SSLNKTQWKSQVHSVAKSKGLPRIDFALKHVSDMFDPSVGGRGNAGVPQTLVVITSSY
                     PHYDVSRAVKVLRELGICILALGIGNVYKGQLLPITGNSEKIITFKDFNTLKNVDVKK
                     RMVREICQSCGKANCFVDVVVGFDISTHRQGQSLFQGHPRLESYLPGILEDITSIRGV
                     SCGAGADTQVSLAFKVNSEQEFPAKFQIYQKAAFNSLLQVTVRGPTHLNAQFLQSLWD
                     VFEERSSSRGQVLLIFSDGLQGESITLLEQQSDRLREAGLDALLVVSLNTFGHHEFSS
                     FEFGKGFDYRTQLTIGMIDLSKKLSQYLGTIAERACCCTFCKCTGIPGPHGTRGLQAS
                     KGSSGLKGSRGHRGEDGDPGRRGDTGLQGDRGVMGCPGIRGQKGVKGFSGAQGEHGED
                     GLDGLDGEEGFYGLRGGKGQKGDPGSQGHPGSRGAPGEDGEKGFPGDPGNPGQDSDIK
                     GQKGAKGERGRQGRPGQKGIDGSPNSRGSRGMQGRRGPPGPSGQAGDPGPQGIQGPEG
                     LQGPQGSSGDRGGKGDKGSEGLQGPQGSPGPVGPRGDIGRPGFGGRKGEPGVPGGPGP
                     LGPPGHRGEQGDYGIPAYGQTGRKGVKGPTGFPGDPGQKGDAGDPGIPGGPGPKGFKG
                     LTLSQGLKGGSGLPGSQGPPGRRGPKGTAGQPIYSPCELIQFLRNNSPCWKEKCPVYP
                     TELVFALDQSFGTSERRFNETRDTIASIIDDLNIRENNCPVGARVVVVSYDSDISYLI
                     RGSDYHSKKHLLQLLSQIKYQVPQKIRDIGSAMRFVARNVFKRTSLGTNTRRVAVFFS
                     NGQAASRASILTATMEFSALDISLAVFAHNERVFLDEAFGFDDTGTFQVIPVPPVGDY
                     EPLEKLRRCTLCYDKCFPNTCAEEPFFPENSYMDVAFLLDNSRNIASDDFQAVKGLVS
                     SVIDGFHITSNPSTSESGDRVALLSYSPSENSRRKGSVKTEFGFTTFDSESIMKNYIH
                     TSLQQLNGDAAIGLALEWAMEGLFLGTPNPRKHKVIIVISAGENHEEKEFVKTVALRA
                     KCQGYIIFVVSLGSTRRDEMEELASYPLDHHLIQLGRMDKPELSYVVKFLKPFVYSVR
                     RGFNQYPPPQMLEDDCRLVDSERGDVLHRRSLRLTAKLHEVSASKNSPAGQELKARKD
                     LSVVLEDHGGDHLVYIPTHMVEPHKLASHYGNDQESVRMASLTSEHENHSRRELSLAQ
                     EPGDASPQEYYMDVAFLIDASQQIGHNAFTEVRAFITSVLDYFHITPAPLTSVLGDRV
                     AVLTYSPPGYLPNTEECPVYLEFDLVTYNTVHQMKRHLQESLKQLNGDVFLGHALQWT
                     IDNVFVGTPNLRKNKVIFIVTAGETNPLDKEVLRNASLRAKCQGYSIFVFSFGPVHND
                     LELEELASHPLEHHLVRLGRVHKPDLDYIIKFIKPFVHSIRRAINKYPSRDLQAKCAN
                     LTFPGLENAGTEDSILLIPEVYQIESGESELSGYSGSQEQPFFLLGKGNDNGSEGTAD
                     LMQHLYLLFSSGELMVNDEEEPCSEETSAPANGKQDGEDAR"
ORIGIN      
        1 agggagcgag tcggccgctg acttaaaaga gctgctggtc ttcactcagc acctgccccg
       61 gagcagtcag cagctaggtg catgctccac gggggacaca gggctgcagt gcaggctgct
      121 ccaggatcct tggagacccc aggaagcctt gctgcagaag gagaggaaga aaaaaaaggg
      181 gaataaaaat aagaaaccct gttcgttaac agaatgaagc tccagctaat tgtgtttgtc
      241 ctaatccttt ggactgagac cctgtcagac cagagcccag gtactgggcc aggacccaag
      301 tatgcagatg tggtctttct ggtagacagc tcggattacc tgggaattaa gtccttccca
      361 ttcgtgagga cttttctcaa caagataatc agcagcctcc ccgtagaggc caacaagtac
      421 cgtgtggccc tggcccagta cagtgatgct ctccacaatg agttccacct aggcgccttc
      481 aagaacagga accccatgct gaaccacctc aagaagaact tcgggttcat cggtggctcc
      541 ctgaagattg ggaacgccct gcaggaggct cacaggacct atttctctgc tcccacaaac
      601 ggaagagaca agaaacagtt ccccccaatc ctggtggtgc tggcttcagc ggagtccgag
      661 gatgacgtgg aagaggcttc gaaggccctg cgggaagatg gggtgaaaat catctctgtg
      721 ggggtgcaga aggcttctga ggaagacctg aaggccatgg ccacccctca gttccatttc
      781 aacctcagga ctgccagaga cctcagcctg tttgcaccag acatggcaca gatcatccag
      841 gatgtgactc agtacaggga aggaacaacg gtggccgtag tcacagatgt agccccgacc
      901 acacccgaac ctctaatcac acctgcagct ctaaccacac ctgcaaacaa tgtcgatgag
      961 acagttccct tccttgcatc ctgccagaaa gactcccttg ccgaccttat attcttggtg
     1021 gacgagtccg tggggaccac acaaaatctg agggatctgc agaacttcct ggagaatgtc
     1081 accagctctg tggatgtgaa ggacaattgc atgaggcttg ggctgatgag cttcagtgac
     1141 aaggctcgga ctgtgtcttc tctgaagtca agcaccagcc agtctgactt ccagcagcaa
     1201 atccagaagc tctcgctccg gacgggggca tctaatgttg gggccgccat tgagcacatg
     1261 aggacagaag gcttctcaga gtccagtggc agcagaaagg cacagggggt cccccagatt
     1321 gctgtgctgg tcacccacag agcgtcagat gatgcggtgc gggaggctgc gctggacctg
     1381 cgcttacagg gtgtaactat gtttgcaatg agcgtccaag gggccaacaa cacacagcta
     1441 gaagacatag tgtcataccc ttccagacag agcatttcca cacacagctc ctacaagcac
     1501 ttggaatcat acagtgggaa cttcctgaag aagatccaca atgaaatctg gacccaggtg
     1561 tctacccatg ctgaacaaat ggagctggat aaaactggct gtgtggacac aaaggaggcc
     1621 gatatctatt tccttattga tgggtcgtcc agcatccgca ggaaagagtt tgagcaaatc
     1681 cagatattca tgtcctccgt ggtagacatg tttcccattg gccccaacaa cgtccgggtt
     1741 ggagttgtac agtactcaca caggaacgaa gtggaatttc ctgtctctca atacacgaag
     1801 ggcatcgaat tgaggaaggc tgtttggaac attaagcaac tcaaaggtgg tacattcact
     1861 gggaaagccc tggatttcat cctgccaata atcaagaagg gaaagtcaga gaggatccac
     1921 gaagtcccct gctacctcat cgtgctgact gatgggaaat caaacgacag cgttctagaa
     1981 cctgccaaca gactgagggc cgagcacatc accattcacg ccgttgggat tggcgaggcg
     2041 aacaagacac agctgcaaca aattgctggg aaagacgaaa gggttagctt tgggcagaat
     2101 tttgattctc tgaagtacat aaaaaacgaa attgtccacc gcatctgctc tgataaagga
     2161 tgtgaagaca tgaaggccga catcatgttc ttggtggaca gttctggaag catagggctt
     2221 acaaattttg agaaaatgaa aactttcatg aaaaacctgg tggggaagat tgagatcggc
     2281 gccgacagat cccaagtcgg tgtcgttcag ttcagtgact acaataaaga agagttccag
     2341 cttaataaat actccacacg tgaggaagtt tatgccgcca tagatggaat gtctcccatc
     2401 aacagaaaca ctttgaccgg aagtgcacta accttcgtaa atgaatactt tgacatttcc
     2461 aagggggggc gtccccaggt cagaaagttc ctcatcctcc tcacagatgg agaagcccag
     2521 gatgaagtgg ggggtccggc catggcgctc aggagcaaaa gtgtgactat cttctctgtg
     2581 ggtgtgtacg gtgctaacag gactcagttg gaggagatca gtggggaggg aagcctggtt
     2641 ttccatgttg agaactttga tcatctgaag accatagaga gtaaactcat ctttcgagtg
     2701 tgtgctctgc atgattgcaa gaggattgaa ctcttagaca ttgtgtttgt gctggaccac
     2761 tcaggcagca tcggtccacg ggagcaagaa agcatgatta acctcaccat ccacctggtg
     2821 gagaaggcag acgttggcag ggacagagtt cagttcggag ctctcatgta ttccaacaac
     2881 cccgagattc ttttctacct taacacttac tcgagcagat cggccatcac cgagcacctg
     2941 aagaggccca gggacaccag aggggatacc tacactgcca aggcccttca gcacgccaac
     3001 atcctgttca tggaagagca tggcagccgc ctgaagcaga acgtgagaca gctgatgatt
     3061 gtcatcaccg atggcgagtc ccacgaccga gataaactca acgacacagc acgggagctc
     3121 agagacaagg gaatcaccat ctttgcagtt ggcgtaggcc gtgccaacca ggatgaactg
     3181 gagaccatgg cagggaagaa agaaaatact atccatgtgg acaatttcga caaactgaga
     3241 gacatttact tgcctctaca agagattctg tgcaataatt cacaagagac ttgtaacctt
     3301 ccagaagctg atgtgatttt cctttgtgat ggctctgaca tggtgtctga ttcagatttt
     3361 gttgccatga caactttctt gtcagactta attgataatt ttgacattga gtctcaaaga
     3421 ctgaaaatcg ggatggctca gtacgggagc cggtatcagg aaattattga gttggaaagc
     3481 tctctgaaca aaactcagtg gaaatctcag gtccacagtg tggctaagag caaggggctt
     3541 ccacgaattg actttgctct taagcatgtg agtgacatgt tcgacccttc ggttggcggg
     3601 agaggaaacg ctggtgtccc tcagactttg gttgttataa catctagtta tccgcactat
     3661 gatgtgtcaa gagcagtgaa ggtcctgaga gaacttggca tctgtatcct ggctttggga
     3721 ataggaaatg tttataaggg acagcttctg cccatcacag gcaattcaga aaaaataatt
     3781 acgttcaaag actttaatac actaaagaat gtggacgtga agaaaagaat ggtccgtgaa
     3841 atttgccaga gctgcgggaa agccaattgc tttgtggatg tagtggtcgg gttcgacatt
     3901 tccactcacc gtcagggcca gtctttgttc cagggccatc cccgcttgga atcgtacctc
     3961 ccaggcatct tggaggacat cacctctatc agaggggtga gctgtggtgc aggagcagac
     4021 acacaggtga gcttggcctt taaggtgaac agtgagcaag agttcccagc caagttccag
     4081 atctatcaga aagcagcgtt caacagcttg ttgcaagtca ccgtccgtgg accaactcat
     4141 ctgaatgcac agttcttaca gtcactctgg gatgtgtttg aggaaagatc ttcatccagg
     4201 ggccaggtcc tgctcatctt ctcagacggt ctccagggtg aaagcatcac tttgctggaa
     4261 cagcagtcag acaggctcag agaagcagga cttgatgccc tgttggtggt gtccctgaac
     4321 acatttggtc accatgagtt ttccagcttt gaatttggaa aaggattcga ctacaggact
     4381 cagctgacca ttggaatgat agatctgagc aagaagctct cacagtatct ggggaccatc
     4441 gcagaacggg cttgctgctg tacattctgt aaatgtacag ggattccagg acctcatgga
     4501 acccggggac tccaagcctc gaagggttct tcaggtctga aaggcagcag aggacacagg
     4561 ggagaggatg gagaccctgg aagacgagga gacactgggc ttcaaggaga cagaggagtc
     4621 atgggatgcc cggggattcg aggtcaaaag ggagtcaaag gattttcggg agctcaggga
     4681 gaacacggag aggacgggct tgacggactg gacggggaag aaggatttta cggacttcgt
     4741 gggggaaaag gacaaaaagg tgaccctggc tctcagggcc acccaggttc cagaggcgct
     4801 cctggggaag atggcgagaa gggcttccca ggggatcccg gtaacccagg acaagacagc
     4861 gacatcaaag gccagaaggg cgccaaagga gaacgaggaa gacaagggag acctggacag
     4921 aaggggatag atggcagtcc taactccaga ggaagcaggg gaatgcaagg ccggaggggg
     4981 cccccaggtc cttcagggca agcaggagac ccgggacctc aaggtataca gggacctgaa
     5041 ggactacaag gcccacaggg gtcaagtgga gatcgtggcg ggaaaggaga caaaggaagt
     5101 gaagggcttc agggacctca gggttctcct gggccagtag gacccagagg ggacatcgga
     5161 agacctggat ttggggggag aaagggggaa cctggagttc ctggaggccc aggaccactg
     5221 gggccccctg gacatcgagg agaacaggga gattatggca tcccagccta tggtcagaca
     5281 ggacgaaaag gagttaaggg cccaacagga ttccctgggg acccagggca gaagggcgat
     5341 gctggagatc ctggaattcc tggggggcct ggacccaaag gattcaaggg actgactctc
     5401 tctcaaggct tgaaaggtgg gagtggactt ccgggctctc aaggcccccc tggtcggaga
     5461 ggtcctaaag gcacagcagg gcaacctata tattccccct gtgaactgat ccagttcctg
     5521 aggaacaata gtccttgttg gaaagaaaag tgtcccgtgt acccaacaga gctggtattt
     5581 gccttggacc agtcctttgg tacttcagag aggagattta atgagacaag ggacaccatt
     5641 gcgtcaatta tcgatgacct caacatcagg gaaaacaact gtcccgtggg agcacgggtt
     5701 gtcgtggttt cctatgactc agacatcagc tacctcatcc gtgggtctga ctaccatagc
     5761 aagaagcatc tccttcagct tctttcccag ataaaatacc aagtccccca gaagatcagg
     5821 gacattggca gtgcaatgag gtttgtggcc cgcaatgttt tcaagcggac atctctggga
     5881 accaacacca ggagagttgc tgtgtttttt agcaatggcc aggcagccag tagagcatcc
     5941 atcctcacgg ccaccatgga gttcagtgcc ctggatatca gccttgcggt ctttgctcat
     6001 aatgaaagag ttttccttga tgaggctttt gggtttgatg acactgggac atttcaggtg
     6061 attccagttc ctccagttgg agattacgag ccactggaaa agcttcgacg ctgcacactt
     6121 tgctatgaca agtgttttcc aaatacttgt gcagaagagc ctttctttcc tgagaattcc
     6181 tacatggatg ttgcattcct cttagacaat tctcgaaaca tagccagtga tgacttccaa
     6241 gctgtgaaag ggctggtgag ctcagtgatt gacggcttcc acatcacttc aaacccttca
     6301 acctctgagt ctggcgacag ggttgctttg ctgagctatt ctccctcaga gaattccaga
     6361 aggaagggca gcgtgaagac agagtttggg tttacaacct ttgacagcga atcaatcatg
     6421 aagaactaca tccacacttc cctccaacag ctcaatggag atgccgccat tggtcttgcc
     6481 ctggagtggg ccatggaggg tctcttcctg ggaaccccca atccaagaaa gcacaaggtc
     6541 atcattgtga tttcagctgg agaaaaccac gaggagaagg aatttgtgaa gacggtggct
     6601 ttgagggcca aatgtcaagg ctatatcata tttgtggttt ctctgggctc cacacgaaga
     6661 gatgagatgg aggaactagc tagttaccca ctcgatcacc atctgataca gcttgggaga
     6721 atggacaagc cagagctgag ttatgttgtg aaatttctga agccctttgt atactcggtc
     6781 agacgcggat ttaatcagta cccgccgcca cagatgctgg aggacgactg caggcttgtt
     6841 gattcagaga ggggggacgt gctgcacaga agaagcctca gattgacggc caagctgcat
     6901 gaggtttctg cgagcaagaa cagtccggct ggtcaagagc tgaaagccag gaaagacttg
     6961 tctgtagtgt tggaggatca cggaggtgac catttggttt acattccaac ccatatggta
     7021 gagccacata agttagcgag tcactatgga aatgaccagg agtctgttag aatggcaagc
     7081 ctcacttccg aacatgaaaa tcatagcaga agagaactga gtcttgctca agagcctgga
     7141 gatgcttctc ctcaagaata ttacatggat gtggctttcc tcatagatgc ttctcaacaa
     7201 ataggacata atgcgtttac agaagtgaga gcttttataa cttcagtact agattacttt
     7261 cacatcaccc cagctccact gacctctgtc ttaggagaca gagtggctgt cctgacctat
     7321 tctcctccag gctatctgcc aaacacggaa gaatgcccag tctacctgga attcgatttg
     7381 gtcacttaca acactgtaca ccaaatgaag cgtcatctcc aagagtctct taagcaactc
     7441 aatggagatg tttttcttgg gcatgccctt cagtggacaa ttgacaatgt ctttgtagga
     7501 acacccaatc tgaggaaaaa caaagttatc tttatagtaa ctgcagggga aaccaacccg
     7561 ttagacaaag aagttttaag gaatgcatct ctgagagcca agtgccaagg ctactccata
     7621 tttgtatttt ccttcggtcc tgtacacaat gacttggagt tagaagaatt agcaagtcac
     7681 cccctggagc atcacttagt ccggcttggt cgggtacaca agccagattt ggactatatc
     7741 atcaagttca tcaagccatt tgttcattca atcagacgtg ctatcaacaa atatcctagc
     7801 agagacctgc aagccaagtg tgctaatctc actttccctg gcctggagaa tgctggcaca
     7861 gaagacagta tattactcat ccctgaggta tatcaaatcg agtcaggaga gagtgagctg
     7921 tctggatact ccggttctca ggagcagcct ttcttcctcc tagggaaggg taatgataac
     7981 gggtcagaag gcactgctga tctcatgcag cacctgtacc tgctcttctc ctctggagaa
     8041 ctcatggtga atgatgaaga agagccgtgt tctgaagaga cctcagctcc agcgaacggc
     8101 aagcaagatg gtgaagatgc gagatgagtt tgcaggaggg aagcgtcctc actggcagat
     8161 gagactccct gcagtggtgg ttccagccaa aagcgtcaat cacttattag aagggcaggg
     8221 gcaggaacta gaactaaatg tagttctcag tcccaaacct gagggagaga ccttcaggat
     8281 agagacatcg aggaacagac cttcaaaatt agggctgcat ttcatctctc agaaggaatg
     8341 gaaacactga gcaagaagag gccacaggtt tccccatgac agcttggccc actcactttg
     8401 atcatttgga tgattgtctg cccaaagaag atttttgtca cagtcgtcac cacatctaca
     8461 tctcaaatta gacccccgaa taaaagcaag ttggaattgg aa
//
