LOCUS       NM_177419               2557 bp    mRNA    linear   ROD 03-APR-2024
DEFINITION  Rattus norvegicus X-ray repair cross complementing 5 (Xrcc5), mRNA.
ACCESSION   NM_177419 XM_343586
VERSION     NM_177419.3
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 2557)
  AUTHORS   Shao,Z., Flynn,R.A., Crowe,J.L., Zhu,Y., Liang,J., Jiang,W.,
            Aryan,F., Aoude,P., Bertozzi,C.R., Estes,V.M., Lee,B.J., Bhagat,G.,
            Zha,S. and Calo,E.
  TITLE     DNA-PKcs has KU-dependent function in rRNA processing and
            haematopoiesis
  JOURNAL   Nature 579 (7798), 291-296 (2020)
   PUBMED   32103174
REFERENCE   2  (bases 1 to 2557)
  AUTHORS   Morchikh,M., Cribier,A., Raffel,R., Amraoui,S., Cau,J., Severac,D.,
            Dubois,E., Schwartz,O., Bennasser,Y. and Benkirane,M.
  TITLE     HEXIM1 and NEAT1 Long Non-coding RNA Form a Multi-subunit Complex
            that Regulates DNA-Mediated Innate Immune Response
  JOURNAL   Mol Cell 67 (3), 387-399 (2017)
   PUBMED   28712728
REFERENCE   3  (bases 1 to 2557)
  AUTHORS   Gilmore,J.M., Sardiu,M.E., Groppe,B.D., Thornton,J.L., Liu,X.,
            Dayebgadoh,G., Banks,C.A., Slaughter,B.D., Unruh,J.R.,
            Workman,J.L., Florens,L. and Washburn,M.P.
  TITLE     WDR76 Co-Localizes with Heterochromatin Related Proteins and
            Rapidly Responds to DNA Damage
  JOURNAL   PLoS One 11 (6), e0155492 (2016)
   PUBMED   27248496
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2557)
  AUTHORS   Naccarati,A., Rosa,F., Vymetalkova,V., Barone,E., Jiraskova,K., Di
            Gaetano,C., Novotny,J., Levy,M., Vodickova,L., Gemignani,F.,
            Buchler,T., Landi,S., Vodicka,P. and Pardini,B.
  TITLE     Double-strand break repair and colorectal cancer: gene variants
            within 3' UTRs and microRNAs binding as modulators of cancer risk
            and clinical outcome
  JOURNAL   Oncotarget 7 (17), 23156-23169 (2016)
   PUBMED   26735576
REFERENCE   5  (bases 1 to 2557)
  AUTHORS   Kang,G.Y., Kim,E.H., Lee,H.J., Gil,N.Y., Cha,H.J. and Lee,Y.S.
  TITLE     Heat shock factor 1, an inhibitor of non-homologous end joining
            repair
  JOURNAL   Oncotarget 6 (30), 29712-29724 (2015)
   PUBMED   26359349
REFERENCE   6  (bases 1 to 2557)
  AUTHORS   Gu,Y., Sekiguchi,J., Gao,Y., Dikkes,P., Frank,K., Ferguson,D.,
            Hasty,P., Chun,J. and Alt,F.W.
  TITLE     Defective embryonic neurogenesis in Ku-deficient but not
            DNA-dependent protein kinase catalytic subunit-deficient mice
  JOURNAL   Proc Natl Acad Sci U S A 97 (6), 2668-2673 (2000)
   PUBMED   10716994
REFERENCE   7  (bases 1 to 2557)
  AUTHORS   Hsu,H.L., Gilley,D., Blackburn,E.H. and Chen,D.J.
  TITLE     Ku is associated with the telomere in mammals
  JOURNAL   Proc Natl Acad Sci U S A 96 (22), 12454-12458 (1999)
   PUBMED   10535943
REFERENCE   8  (bases 1 to 2557)
  AUTHORS   Bianchi,A. and de Lange,T.
  TITLE     Ku binds telomeric DNA in vitro
  JOURNAL   J Biol Chem 274 (30), 21223-21227 (1999)
   PUBMED   10409678
  REMARK    Erratum:[J Biol Chem 1999 Dec 3;274(49):35284]
REFERENCE   9  (bases 1 to 2557)
  AUTHORS   Bakalkin,G., Yakovleva,T., Hurd,Y.L., Nussenzweig,A., Li,G.C. and
            Terenius,L.
  TITLE     Autoantigen Ku in the brain. Developmentally regulated expression
            and subcellular localization
  JOURNAL   Neuroreport 9 (9), 2147-2151 (1998)
   PUBMED   9674610
REFERENCE   10 (bases 1 to 2557)
  AUTHORS   Chung,U., Igarashi,T., Nishishita,T., Iwanari,H., Iwamatsu,A.,
            Suwa,A., Mimori,T., Hata,K., Ebisu,S., Ogata,E., Fujita,T. and
            Okazaki,T.
  TITLE     The interaction between Ku antigen and REF1 protein mediates
            negative gene regulation by extracellular calcium
  JOURNAL   J Biol Chem 271 (15), 8593-8598 (1996)
   PUBMED   8621488
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000009.1.
            
            On Mar 19, 2021 this sequence version replaced NM_177419.2.
            
            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 :: BC061576.1, SRR26643289.25885.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760383, SAMEA5760386
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-161               JAXUCZ010000009.1  81404507-81404667
            162-275             JAXUCZ010000009.1  81407412-81407525
            276-459             JAXUCZ010000009.1  81409398-81409581
            460-508             JAXUCZ010000009.1  81411183-81411231
            509-631             JAXUCZ010000009.1  81412401-81412523
            632-823             JAXUCZ010000009.1  81415812-81416003
            824-938             JAXUCZ010000009.1  81422023-81422137
            939-1077            JAXUCZ010000009.1  81423175-81423313
            1078-1190           JAXUCZ010000009.1  81426979-81427091
            1191-1253           JAXUCZ010000009.1  81432085-81432147
            1254-1391           JAXUCZ010000009.1  81435145-81435282
            1392-1482           JAXUCZ010000009.1  81436380-81436470
            1483-1616           JAXUCZ010000009.1  81439402-81439535
            1617-1813           JAXUCZ010000009.1  81441964-81442160
            1814-1907           JAXUCZ010000009.1  81452768-81452861
            1908-1977           JAXUCZ010000009.1  81455299-81455368
            1978-2087           JAXUCZ010000009.1  81478761-81478870
            2088-2184           JAXUCZ010000009.1  81480672-81480768
            2185-2252           JAXUCZ010000009.1  81481009-81481076
            2253-2324           JAXUCZ010000009.1  81492232-81492303
            2325-2557           JAXUCZ010000009.1  81493061-81493293
FEATURES             Location/Qualifiers
     source          1..2557
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="9"
                     /map="9q33"
     gene            1..2557
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /note="X-ray repair cross complementing 5"
                     /db_xref="GeneID:363247"
                     /db_xref="RGD:3976"
     exon            1..161
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     CDS             141..2339
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /note="X-ray repair cross complementation
                     (double-strand-break rejoining; Ku autoantigen, 80kD);
                     X-ray repair complementing defective repair in Chinese
                     hamster cells 5"
                     /codon_start=1
                     /product="X-ray repair cross-complementing protein 5"
                     /protein_id="NP_803154.2"
                     /db_xref="GeneID:363247"
                     /db_xref="RGD:3976"
                     /translation="MAWSGNKAAVVLCMDVGVAMGNSFPGEESPLEQAKKVMTMFVQR
                     QVFSESKDEIALVLYGTESTDNALAGKDQYQNITVHRHLMLPDFDLLEDIGNKIQPSS
                     QQADFLDALIVCMDLIQRETIGKKFGKKHIEVFTDLSSPFSQDQLDIIICNLKKSSIS
                     LQFFLPFPIDKNGEPGETEDHDSSFDHCAPSFPQKGLTEQQKEGIHMVTRVMLSLEGK
                     DGLDEIYSFSESLQQLCIFKKIERRSLPWPCQLTIGPNLSIRIVAYKSIVQEKFKKSW
                     VVVDARTLKKEDIQKETVYCLNDDDETEVSKEDTIQGFRYGSDIIPFSKVDEEQMKYK
                     SEGKCFSVLGFCKSSQVHRRFFMGHQVLKVFAAKDDEAAAVALSSLVHALDELNMVAI
                     VRYAYDKRANPQVGVAFPFIKDAYECLVYVQLPFMEDLRQYMFSSLKNNKKCTPTEAQ
                     LSAIDDLIDSMSLVKKNEEEDIIEDLFPTSKIPNPEFQRLYQCLLHRALHLQERLPPI
                     QQHILNMLDPPTEMKAKCEIPLSKVKTLFPLTEVVKKKDQVTAQDVFQDNIEEGPAAK
                     KYKTEKEEGHISISSLAEGNVTKVGSVNPVENFRVLVRQKIASFEEASLQLMSHIEQF
                     LDTNETLYFMKSMDCIKALREEAIQFSEEQRFNSFLEGLREKVEIKQLNHFWEIVVQD
                     GITLITKDESPGSSVTAEEATKFLTPKDKAKEDTTGLEEGGDVDDLLDMI"
     exon            162..275
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            276..459
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            460..508
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            509..631
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            632..823
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            824..938
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            939..1077
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            1078..1190
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            1191..1253
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            1254..1391
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            1392..1482
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            1483..1616
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            1617..1813
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            1814..1907
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            1908..1977
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            1978..2087
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            2088..2184
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            2185..2252
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            2253..2324
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
     exon            2325..2557
                     /gene="Xrcc5"
                     /gene_synonym="Ku80; Kup80"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 atgctcacag cccaggagca ggacttctcc gcctagcacg cagagcggga cctcttggtc
       61 tgtggattac ccggaacaga gttgcgacac tctaggtttc cgcccggaaa aagtaaccaa
      121 accacctgag gaccagcaac atggcgtggt ccggtaataa ggcagctgtt gtgctgtgta
      181 tggatgtggg ggttgccatg ggtaactcct ttcctggtga agaatcccca cttgaacagg
      241 ccaagaaagt gatgactatg tttgtccaac gacaggtgtt ttcggagagc aaggatgaga
      301 tcgccttagt cctctatggt acagagagca ctgataacgc ccttgctggc aaggaccagt
      361 atcagaacat cacagtgcac aggcacctga tgctaccaga ttttgatttg ctggaagaca
      421 tcggaaacaa aatccaacca agttctcaac aagccgactt cctggacgcc ctgattgtgt
      481 gcatggattt gattcagcgt gaaaccatag gaaagaagtt tgggaagaag catattgaag
      541 tgttcactga cctcagcagc ccattcagcc aagaccaact ggacattata atttgtaacc
      601 tgaagaagtc cagcatctcc ctgcagttct ttctgccttt tccaatcgac aagaatggtg
      661 agcctgggga gacagaagac cacgactcca gcttcgacca ctgtgcaccc tccttccctc
      721 aaaaaggact tactgagcag caaaaggaag gcatccacat ggtgacgagg gtgatgctgt
      781 ctttagaagg caaagatggt ctggatgaaa tttattcctt cagcgagagt cttcagcaac
      841 tgtgcatctt taagaagatt gagaggcggt ccttgccctg gccctgccaa ctgaccatcg
      901 gccccaactt gtctataagg atcgtagcct ataaatcgat tgtacaggag aaatttaaaa
      961 agagttgggt agttgtggac gcaagaactc taaagaagga agatatacaa aaagagactg
     1021 tttattgcct aaatgacgat gatgaaactg aagtttccaa agaggacact attcaagggt
     1081 tccgctatgg aagcgacatc attccttttt ctaaagtgga tgaggaacaa atgaaatata
     1141 aatcggaggg gaagtgcttc tctgttctgg ggttctgtaa atcttctcag gttcatagaa
     1201 gattcttcat gggacatcaa gttctgaagg tcttcgcagc gaaggatgat gaggcagcag
     1261 ctgttgcact ttcttcccta gttcacgctt tggatgagtt aaacatggtc gctatcgtcc
     1321 gctacgccta tgacaaaaga gctaatcctc aagttggtgt agccttccct ttcattaagg
     1381 atgcctatga gtgtttagtt tatgtgcagc tgcctttcat ggaagacttg cggcaataca
     1441 tgttttcctc actgaaaaac aataagaagt gcacccccac agaggcacag ctgagtgcga
     1501 tcgatgatct gattgattcc atgagcttgg taaagaaaaa cgaggaagaa gacatcatcg
     1561 aagacttgtt tccaacctcc aaaattccaa atcctgaatt tcagcggttg taccagtgtc
     1621 tgctgcacag agccttacat ctccaggagc ggctgccccc aattcagcag cacattttga
     1681 atatgctgga tccccccact gagatgaaag caaaatgtga gattccactc tctaaagtaa
     1741 agaccctttt ccctctgacg gaagtcgtta agaaaaagga ccaagtgact gctcaggacg
     1801 ttttccaaga caatattgaa gaggggcccg ctgctaaaaa atacaagact gagaaagaag
     1861 aaggtcacat cagcatctcc agcctggcag aagggaatgt caccaaggtt ggaagtgtga
     1921 atcctgttga aaacttccgt gtcctagtaa gacagaagat tgccagcttt gaggaagcga
     1981 gtctccagct aatgagtcac attgaacagt ttttggatac caatgaaaca ctgtatttta
     2041 tgaaaagtat ggactgcatc aaagctctcc gggaggaagc cattcagttt tcagaagagc
     2101 agcgtttcaa cagtttcctg gaaggccttc gagagaaagt ggaaattaaa caattaaatc
     2161 atttctggga aattgtcgtg caggatggaa ttactctgat caccaaagac gaaagcccag
     2221 gaagctctgt cacagctgag gaggccacga agttcctgac ccccaaagac aaagcaaaag
     2281 aagacacaac aggacttgaa gaaggtggtg atgtggatga tttactggac atgatataga
     2341 tcatggatgc gtggggaatc caggagtacc agctccgtgt tgctgagagc tccgacacca
     2401 tccctgaggc cgtgcagggg gacatgaagc tctggccatc atcctagcag acaacttggg
     2461 agtgagtcac tccaggtccc tacagacata tattacatgg aataacttag accctattca
     2521 aatttataaa gagccattat tttctgattg gtatatc
//
