LOCUS       XM_039082587            5339 bp    mRNA    linear   ROD 11-JUN-2023
DEFINITION  PREDICTED: Rattus norvegicus DNA topoisomerase II binding protein 1
            (Topbp1), mRNA.
ACCESSION   XM_039082587
VERSION     XM_039082587.1
DBLINK      BioProject: PRJNA677964
KEYWORDS    RefSeq; corrected model.
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
            
            ##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##
            
            ##RefSeq-Attributes-START##
            frameshifts :: corrected 2 indels
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-233               JACYVU010000200.1  6846588-6846820
            234-324             JACYVU010000200.1  6847582-6847672
            325-459             JACYVU010000200.1  6849315-6849449
            460-603             JACYVU010000200.1  6849742-6849885
            604-785             JACYVU010000200.1  6851387-6851568
            786-982             JACYVU010000200.1  6852638-6852834
            983-1168            JACYVU010000200.1  6854354-6854539
            1169-1218           JACYVU010000200.1  6857562-6857611
            1219-1266           JACYVU010000200.1  6857613-6857660
            1267-1267           "N"                1-1
            1268-1335           JACYVU010000200.1  6857661-6857728
            1336-1499           JACYVU010000200.1  6859943-6860106
            1500-1747           JACYVU010000200.1  6860221-6860468
            1748-2106           JACYVU010000200.1  6862378-6862736
            2107-2279           JACYVU010000200.1  6863551-6863723
            2280-2491           JACYVU010000200.1  6865811-6866022
            2492-2778           JACYVU010000200.1  6868201-6868487
            2779-2949           JACYVU010000200.1  6870880-6871050
            2950-3059           JACYVU010000200.1  6871143-6871252
            3060-3183           JACYVU010000200.1  6872422-6872545
            3184-3330           JACYVU010000200.1  6873740-6873886
            3331-3433           JACYVU010000200.1  6873984-6874086
            3434-3445           JACYVU010000200.1  6874873-6874884
            3446-3626           JACYVU010000200.1  6876166-6876346
            3627-3847           JACYVU010000200.1  6878904-6879124
            3848-3999           JACYVU010000200.1  6880497-6880648
            4000-4111           JACYVU010000200.1  6880875-6880986
            4112-4275           JACYVU010000200.1  6882657-6882820
            4276-4413           JACYVU010000200.1  6883578-6883715
            4414-4503           JACYVU010000200.1  6884881-6884970
            4504-4665           JACYVU010000200.1  6885123-6885284
            4666-5339           JACYVU010000200.1  6889772-6890445
FEATURES             Location/Qualifiers
     source          1..5339
                     /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..5339
                     /gene="Topbp1"
                     /note="DNA topoisomerase II binding protein 1; The
                     sequence of the model RefSeq transcript was modified
                     relative to its source genomic sequence to represent the
                     inferred CDS: inserted 1 base in 1 codon; deleted 1 base
                     in 1 codon; Derived by automated computational analysis
                     using gene prediction method: Gnomon. Supporting evidence
                     includes similarity to: 24 ESTs, 4 Proteins, and 97%
                     coverage of the annotated genomic feature by RNAseq
                     alignments"
                     /db_xref="GeneID:315969"
                     /db_xref="RGD:1562949"
     CDS             16..4800
                     /gene="Topbp1"
                     /note="The sequence of the model RefSeq protein was
                     modified relative to its source genomic sequence to
                     represent the inferred CDS: inserted 1 base in 1 codon;
                     deleted 1 base in 1 codon"
                     /codon_start=1
                     /product="LOW QUALITY PROTEIN: DNA topoisomerase 2-binding
                     protein 1"
                     /protein_id="XP_038938515.1"
                     /db_xref="GeneID:315969"
                     /db_xref="RGD:1562949"
                     /translation="MTPLPPEEALRPLVWRESRFLVLALPGTAALTSGWGRRRGRGLR
                     AGLAPDPSRRPAGRAPPDLVPVGPRAPPSSAMSRNDQEPFFVKFLKSSDNSECFFKAL
                     ESIKELQSEEYLQVITDEEALRIKENDKSLYICDRFSGTAFDHLKQLGCRIVGPQVVT
                     FCMRHQQCVPRAEHPVYNMIMSDITISCTSLDKDKREEVHKYVQMMGGRVYRDLNVSV
                     THLIAGEVGSKKYLVAANLKKPILLPAWIKTLWEKSQEKKITKYTDVNMEDFKCPIFL
                     GCIICVTGLNGIHRKTVQQLTAKHGGQYMGQLKMNECTHLIVQEPKGQKYECARRWNV
                     HCVTLQWFHDSIEKGFCQDESIYKAEPRAAVKTVPDTSTPTAQSGSAAAENHRLADVS
                     HISNINGSCVNETMFGSTTSKLECTXENLENLDISMFQAPEDLLDGCRIYLCGFSGRK
                     LDKLRRLINSGGGVRFNQLNEDVTHVIMGDYEDDVRQFWSKSSHRPHVVGAKWLLECL
                     VKGYILPEESYIHANYQPDGIPVSDQPRNQTTVLEKSGTFSKKDFVPNEKFQQTDEDL
                     LAQYVHDDSTIVEAKLSEAIEPEVGPCGGSAHVEPCDDSTHISVQEENKSSVSHCLLD
                     GSTVPEEGLFSQKSFLVLGFSVENECNIVNIIREHAGKIVSLPSRIVADYAVVPLLGC
                     EVEATVAEVVTNTWLVTCIDNQTLVDPKSNPLFTPVSVMSGMTPLEDCVISFSQCVGA
                     ERDSLVFLANHLGASVQEFFVRKSNAKKGMLASTHLIVKEPTGSKYEAAKKWSLPAVN
                     ISWLLETARMGKRADENHFLVDSAPKQEQVLETNIPNGVSPNPDSPAHPDAHLEIHRQ
                     KAVTPLDMNRFQSKAFHAVISQHNRQGLASPPVRQPPKKEPSFHLDTPSKFLSKDKLF
                     KPSFDVTDALAALETPNAASQKRKLSSPLSEVIVRNLTTALANSSRNTGCLSASPQLK
                     GAHLEKEETPKPLDKVVVCVSKRLSKKQSELNGVAASLGAEYRWSFDETVTHYIYQGR
                     ANDSNREYKSAKERGVHVVSEHWLLECAQEYKHLPESLYPHTYNPKMSLDISTVQDGR
                     LCDSRLPSALSASKDDEPDHLSVEENATETLGTHSRESALLNGNGRDDCKGAMFQCLE
                     MRENFQKQLQEIMSATSIVRTPAQKTCMSRSSCNSASSTPDSTRSARSGRSRVLEALR
                     QSRQIVPDINTEPSQNEQIIWDDPTAREERARLASNLQWPSYPTQYSELQVEIKKLDD
                     SPSRKPVYHSEIAGQASCVTQAPGQHPGSEEPEAPAAERNLIPEPQAPSVAFPLAKPP
                     VAPQPEDKIETLEETHGKLKKQYVFQMSSLNSQERIDYCRLIKDLGGSVIEKQCSDPS
                     CTHMVVGYPLRNEKYLASMAAGKWVLHRSYLDACRTAGRFVQEEDYEWGSSSILDALP
                     DVTEHQQKLALAAMRWRKRIQQSRESGIAEGAFSGWKVILRVDRPREAGFKRLLQAGG
                     AKVLPGHPEPLFKDATHLFCDFNKLKPDDCRVFIAEATAQNMVCLKTEYIADYLMMES
                     PPCADNYRVSETALFRNKEGGPGLPQKRKTPAENVIKRPRVH"
ORIGIN      
        1 ccagagcggc ccctgatgac gccacttcct ccggaagagg cgttgcgtcc gctcgtttgg
       61 cgcgaaagtc ggttcctggt cttggccctt ccgggtactg cagcgttaac ctcgggctgg
      121 gggcgccgcc gagggcgggg gctgcgcgcc gggctggcgc ccgaccccag ccgccgtcct
      181 gccggccgcg cgcctcccga cttggtgccc gtgggccctc gggctccacc tagttcagct
      241 atgtccagaa atgaccaaga gccgtttttt gtgaagtttt taaagtcttc ggacaattca
      301 gaatgttttt ttaaagctct tgagtcaata aaggagttac aatcagaaga gtatcttcag
      361 gttattaccg atgaggaagc attgaggatt aaagagaatg acaaatcgct ttatatctgt
      421 gaccgtttca gtggcactgc ttttgatcac cttaaacagc ttggctgcag aattgttggt
      481 cctcaagtag tcacattttg tatgcgccac cagcagtgtg tcccaagagc tgaacatcca
      541 gtttataata tgattatgtc tgacataact atatcttgta caagcctgga taaagacaag
      601 agggaagaag ttcataaata cgtacaaatg atgggtggac gagtatacag agaccttaat
      661 gtctcagtca ctcaccttat tgcaggagaa gttgggagca aaaaatactt agttgctgct
      721 aatctgaaga aacctatttt gcttcctgct tggattaaaa cactttggga gaagtcacaa
      781 gaaaaaaaaa taaccaaata cactgatgta aacatggaag actttaagtg tcctattttc
      841 cttggttgca ttatctgtgt gactggctta aatggtatac acaggaagac agtccagcag
      901 ctcacagcta agcatggagg ccagtacatg gggcagctga agatgaacga gtgcacacac
      961 ctcattgtgc aagaaccaaa aggacaaaaa tatgaatgtg ccaggagatg gaatgtgcac
     1021 tgtgtgaccc tgcaatggtt ccatgacagt attgagaaag gcttttgtca ggatgagtct
     1081 atatacaagg ccgaacccag agcagcggta aagacggtgc ctgatacttc cacacccact
     1141 gctcagagcg gcagtgctgc agctgagaat cacaggctgg cagatgtcag ccatatatcc
     1201 aacatcaacg gcagctgtgt aaatgaaaca atgtttggtt caactacgag caaactcgaa
     1261 tgcacanatg agaacctaga aaatctggac atcagtatgt ttcaagcacc tgaagatcta
     1321 ttagatggct gtcggatata tctttgtggc tttagtggca gaaagctcga taagttgaga
     1381 aggcttatta acagtggagg tggagttcgg tttaatcaac tcaatgaaga tgtaactcat
     1441 gtaatcatgg gagattatga ggatgacgtg aggcagtttt ggagcaaatc ctcccacagg
     1501 ccccatgtag tgggagcaaa gtggttgctg gagtgtttag taaagggata tatacttcct
     1561 gaagagtcat atatccacgc taactaccag ccagatggaa ttccagtttc agatcagccc
     1621 agaaaccaga caactgtctt agaaaagagt ggcacattct ctaagaagga ctttgttcct
     1681 aatgagaagt ttcagcagac tgatgaggat ctgcttgctc agtatgtaca tgatgactcc
     1741 acaatagttg aagctaagct atctgaagct atagagcctg aagttgggcc ttgcggtggt
     1801 tctgctcatg ttgagccctg tgatgattcc actcacattt ctgtgcaaga ggaaaacaag
     1861 tcgtctgtca gtcattgcct ccttgatggc tctacagttc ctgaggaagg cttatttagc
     1921 caaaagagtt tccttgtttt gggttttagt gttgaaaatg aatgtaatat tgtaaacatc
     1981 ataagagagc atgctggaaa gattgtgtcc cttcccagca gaattgttgc tgactatgcc
     2041 gtggttcccc tgctgggatg tgaagtagaa gcgacagtgg cagaagttgt tacaaacaca
     2101 tggctggtta catgcataga caaccagaca ttagttgatc ccaagtcgaa tcccctcttc
     2161 acgccagtct cagtaatgtc aggaatgact cctttagagg actgtgtgat ttccttcagt
     2221 cagtgtgtgg gagcagaaag agattccttg gtattcttag caaatcatct tggagcaagt
     2281 gttcaagaat tctttgtccg caaatccaat gcaaagaaag gcatgctcgc cagtacacat
     2341 cttatagtga aagaaccgac tggttctaaa tatgaagctg caaagaaatg gagtttgcca
     2401 gcagttaata tttcgtggct cttagaaact gctagaatgg ggaagagagc agatgaaaac
     2461 cattttctgg ttgacagtgc acctaaacaa gaacaagtat tagaaactaa cataccaaat
     2521 ggagtgagtc caaatccaga ttctccagca catcctgatg cacacttgga aattcacaga
     2581 caaaaggccg ttacaccttt ggacatgaac cgatttcaga gtaaagcttt ccatgctgtc
     2641 atctcacagc acaacaggca gggcttggcc tccccaccag tgagacagcc acctaagaag
     2701 gaaccctcct tccacctgga cacaccctca aagttcctgt ccaaggacaa gcttttcaag
     2761 ccatcctttg atgtgacgga tgcacttgca gccttagaaa ccccaaatgc tgccagccag
     2821 aagcggaaac tgagctcacc actctctgaa gtcatcgtca gaaacctgac aactgctttg
     2881 gcaaatagtt cacgaaacac cggctgtctt tctgctagcc ctcagctaaa gggtgcccat
     2941 ttggagaagg aagagactcc gaaaccgctt gacaaagttg tggtgtgcgt gagtaaaagg
     3001 ctcagtaaga agcagagtga gctaaatggg gttgcagcct cactgggagc agagtacagg
     3061 tggagttttg atgagacagt tactcattac atttaccagg gtcgggcaaa tgatagtaat
     3121 cgcgagtata aatctgcaaa ggaaagaggg gtgcacgtcg tgtcggagca ttggctgtta
     3181 gagtgtgctc aagagtataa gcatcttcca gaatctcttt acccacacac ttacaacccc
     3241 aaaatgagct tggacatcag cacagtgcag gacgggcggc tctgtgacag ccgcttaccc
     3301 tcggcacttt ctgcatctaa ggacgatgag ccagatcacc tgtctgtaga agaaaatgca
     3361 acagagactt tgggcacaca cagcagagag tccgctctgc tgaatgggaa tggaagggac
     3421 gactgcaaag gagcaatgtt tcagtgcctt gagatgagag agaacttcca gaaacaacta
     3481 caagagatca tgtcagcaac ctccatcgtg aggacaccag cccagaagac ttgcatgtca
     3541 agaagtagtt gtaacagcgc ctcttcaact cctgacagca ctcgctctgc tcggagtgga
     3601 cgaagccgag tcttggaggc gctcaggcag tctcgacaga tagtgcctga tatcaacaca
     3661 gagccctccc agaatgaaca gatcatttgg gatgacccaa cagcaaggga ggagagagca
     3721 aggcttgcca gcaacctaca gtggcctagc tacccaacac agtattccga gcttcaggtt
     3781 gagataaaaa aactggatga ttctccttct cgaaagcctg tgtaccattc agaaattgct
     3841 gggcaggcct cgtgtgtgac tcaagcccca gggcagcacc caggctctga agaaccagaa
     3901 gctccagcag cagaaaggaa tctgatccct gagcctcaag cccccagcgt ggctttcccc
     3961 ctggctaagc cgcctgtagc tccacaacct gaggacaaga ttgaaacact ggaggagacg
     4021 catggaaaac ttaaaaaaca gtatgtgttc cagatgtcat ctctgaattc tcaagagcgg
     4081 attgattact gtcgcctgat taaagaccta ggtgggtcgg tgatcgagaa gcagtgctca
     4141 gaccccagct gcacacacat ggttgtgggg tacccactgc gcaatgagaa atacttagct
     4201 tccatggcag ctggcaaatg ggtgcttcat cgctcctacc tggacgcttg ccggacagct
     4261 gggcgctttg tgcaggagga agactacgag tggggaagca gctccatcct agatgctctc
     4321 cctgacgtca ctgagcacca gcagaagctc gcacttgcag caatgagatg gaggaaaaga
     4381 atccagcaga gtcgggagtc gggcatcgct gagggagcat ttagtggctg gaaagttatt
     4441 ttgcgcgttg atcggccccg agaagcaggg tttaagcgcc ttcttcaggc aggaggagca
     4501 aaggtattgc ctggtcatcc agagccttta tttaaggatg ctacacatct cttctgtgat
     4561 ttcaataaac tgaagcctga tgactgcaga gtttttatcg cagaggctac ggcccagaac
     4621 atggtctgct tgaaaacaga atatattgct gattacctca tgatggaatc ccctccttgt
     4681 gctgataatt accgagtatc cgaaactgct ttattccgta acaaggaagg tgggcctgga
     4741 ctaccacaga agaggaaaac tcctgcagag aacgtcatca aacggcctcg ggtgcactga
     4801 ttctcaaaag aatgttttga gtttagcgcg cttgtccaaa atgcgtaaga ctgtgtcaat
     4861 gtccagcagc ataagaaaat tttcagctac aagctgaaca ttgctgtcat gcatttgtgt
     4921 agcattttaa aggcatacat gtgataaaat gatctgtgaa cttgatgcct ttaacctgaa
     4981 tgaatcactg gacgctgact gttcctgata aaaaggaacg taattagctt gccaagccac
     5041 actgagtaca ttaggacttt tcttgtaaat atatgaggct gtagtcgttt taacaagatt
     5101 tgtttaaaaa gtgtcttggt ttatacatta gggttatttc ctgttttcct gatctttata
     5161 tatgtattct tgccatttaa cctcttttta acagcctaag cagagtttaa taatgaagct
     5221 ggggctttaa gcttaaaata tgtatatatg taaatgtgtg tatgtataaa ctaaactatc
     5281 atttgccaaa tgtgggcacc aaaactttaa gaaaaaataa aaaatagcaa ctcaaacta
//
