LOCUS       NM_001399041             922 bp    mRNA    linear   ROD 24-JUN-2024
DEFINITION  Rattus norvegicus XPA, DNA damage recognition and repair factor
            (Xpa), transcript variant 1, mRNA.
ACCESSION   NM_001399041 XM_006238036
VERSION     NM_001399041.1
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 922)
  AUTHORS   Guthrie,O.W.
  TITLE     Noise Stress Induces an Epidermal Growth Factor Receptor/Xeroderma
            Pigmentosum-A Response in the Auditory Nerve
  JOURNAL   J Histochem Cytochem 65 (3), 173-184 (2017)
   PUBMED   28056182
  REMARK    GeneRIF: This current study tested the hypothesis that noise stress
            would alter the expression pattern of EGFR/XPA within the auditory
            nerve. In both the apical and middle cochlear coils, the noise
            stress depleted EGFR+XPA expression. Furthermore, there was a
            reduction in the proportion of neurons that expressed XPA-alone in
            the middle coils.
REFERENCE   2  (bases 1 to 922)
  AUTHORS   Guthrie,O.W.
  TITLE     Localization and distribution of neurons that co-express xeroderma
            pigmentosum-A and epidermal growth factor receptor within
            Rosenthal's canal
  JOURNAL   Acta Histochem 117 (8), 688-695 (2015)
   PUBMED   26493720
  REMARK    GeneRIF: A population of spiral ganglion neurons that
            constitutively express XPA may also express the EGFR in rat.
REFERENCE   3  (bases 1 to 922)
  AUTHORS   Lalonde,R. and Strazielle,C.
  TITLE     Behavioral effects of neonatal lesions on the cerebellar system
  JOURNAL   Int J Dev Neurosci 43, 58-65 (2015)
   PUBMED   25907855
  REMARK    GeneRIF: This study showed that spontaneous Xpa mutations causing
            cerebellar pathology are impaired in motor functions during the
            neonatal period.
REFERENCE   4  (bases 1 to 922)
  AUTHORS   Guthrie,O.W. and Xu,H.
  TITLE     Noise exposure potentiates the subcellular distribution of
            nucleotide excision repair proteins within spiral ganglion neurons
  JOURNAL   Hear Res 294 (1-2), 21-30 (2012)
   PUBMED   23022597
REFERENCE   5  (bases 1 to 922)
  AUTHORS   Kamileri,I., Karakasilioti,I. and Garinis,G.A.
  TITLE     Nucleotide excision repair: new tricks with old bricks
  JOURNAL   Trends Genet 28 (11), 566-573 (2012)
   PUBMED   22824526
  REMARK    Review article
REFERENCE   6  (bases 1 to 922)
  AUTHORS   Bol,S.A., van Steeg,H., Jansen,J.G., Van Oostrom,C., de Vries,A.,
            de Groot,A.J., Tates,A.D., Vrieling,H., van Zeeland,A.A. and
            Mullenders,L.H.
  TITLE     Elevated frequencies of benzo(a)pyrene-induced Hprt mutations in
            internal tissue of XPA-deficient mice
  JOURNAL   Cancer Res 58 (13), 2850-2856 (1998)
   PUBMED   9661901
REFERENCE   7  (bases 1 to 922)
  AUTHORS   He,Z., Henricksen,L.A., Wold,M.S. and Ingles,C.J.
  TITLE     RPA involvement in the damage-recognition and incision steps of
            nucleotide excision repair
  JOURNAL   Nature 374 (6522), 566-569 (1995)
   PUBMED   7700386
REFERENCE   8  (bases 1 to 922)
  AUTHORS   Park,C.H. and Sancar,A.
  TITLE     Formation of a ternary complex by human XPA, ERCC1, and ERCC4(XPF)
            excision repair proteins
  JOURNAL   Proc Natl Acad Sci U S A 91 (11), 5017-5021 (1994)
   PUBMED   8197175
REFERENCE   9  (bases 1 to 922)
  AUTHORS   Miyamoto,I., Miura,N., Niwa,H., Miyazaki,J. and Tanaka,K.
  TITLE     Mutational analysis of the structure and function of the xeroderma
            pigmentosum group A complementing protein. Identification of
            essential domains for nuclear localization and DNA excision repair
  JOURNAL   J Biol Chem 267 (17), 12182-12187 (1992)
   PUBMED   1601884
REFERENCE   10 (bases 1 to 922)
  AUTHORS   Tanaka,K., Miura,N., Satokata,I., Miyamoto,I., Yoshida,M.C.,
            Satoh,Y., Kondo,S., Yasui,A., Okayama,H. and Okada,Y.
  TITLE     Analysis of a human DNA excision repair gene involved in group A
            xeroderma pigmentosum and containing a zinc-finger domain
  JOURNAL   Nature 348 (6296), 73-76 (1990)
   PUBMED   2234061
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000005.1.
            
            On Dec 30, 2021 this sequence version replaced XM_006238036.4.
            
            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 :: SRR26643299.22710.1, CB557000.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760389,
                                           SAMN12840105 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-225               JAXUCZ010000005.1  65271108-65271332   c
            226-336             JAXUCZ010000005.1  65267457-65267567   c
            337-442             JAXUCZ010000005.1  65254527-65254632   c
            443-608             JAXUCZ010000005.1  65253283-65253448   c
            609-726             JAXUCZ010000005.1  65251905-65252022   c
            727-922             JAXUCZ010000005.1  65246754-65246949   c
FEATURES             Location/Qualifiers
     source          1..922
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="5"
                     /map="5q22"
     gene            1..922
                     /gene="Xpa"
                     /note="XPA, DNA damage recognition and repair factor"
                     /db_xref="GeneID:298074"
                     /db_xref="RGD:1308769"
     exon            1..225
                     /gene="Xpa"
                     /inference="alignment:Splign:2.1.0"
     CDS             54..875
                     /gene="Xpa"
                     /note="isoform 1 is encoded by transcript variant 1; DNA
                     repair protein complementing XP-A cells; xeroderma
                     pigmentosum, complementation group A"
                     /codon_start=1
                     /product="DNA repair protein complementing XP-A cells
                     isoform 1"
                     /protein_id="NP_001385970.1"
                     /db_xref="GeneID:298074"
                     /db_xref="RGD:1308769"
                     /translation="MATAEEKRTSPEPAAAEKPAELPAAVRASVERKRQRALMLRQAR
                     LAARPYPAAAATGGVTSIKAAPKVIDTKGGFILEEEEEEKHKIGDVVHEPGPVMEFDY
                     TICEECGKEFMDSYLMNHFDLPTCDSCRDADDKHKLITKTEAKQEYLLKDCDLEKREP
                     ALRFIVKKNPRHSQWGDMKLYLKLQVVKRALEVWGSQEALEDAKEVRQENREKMKQKK
                     FDKKVKELRRAVRSSVWKRETTAHQHEYGPEEHLEEDMYRKTCTLCGHELTYEKM"
     exon            226..336
                     /gene="Xpa"
                     /inference="alignment:Splign:2.1.0"
     exon            337..442
                     /gene="Xpa"
                     /inference="alignment:Splign:2.1.0"
     exon            443..608
                     /gene="Xpa"
                     /inference="alignment:Splign:2.1.0"
     exon            609..726
                     /gene="Xpa"
                     /inference="alignment:Splign:2.1.0"
     exon            727..922
                     /gene="Xpa"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gctgctagaa actgttagtg attcgcgtgc gctgtttacg gagtgtgtta gcgatggcga
       61 cagcggagga gaagcggacg tcaccggagc ccgcggccgc ggagaagccc gcggagctgc
      121 cggccgccgt acgcgcgagc gtggagcgga agcggcagcg ggcgctgatg ctgcgccagg
      181 cccggctggc ggcgcggccg tacccggcgg cggcggccac cggaggcgtg accagcataa
      241 aagcagctcc caaagtgatt gacaccaaag gtggcttcat tttagaagag gaggaagaag
      301 agaaacacaa gattggagat gttgttcatg aaccagggcc cgtcatggag tttgattaca
      361 ccatctgtga agagtgtggg aaagagttca tggactcgta tcttatgaac cacttcgatt
      421 tgccaacatg cgatagctgc agagatgctg atgataaaca caagcttata accaaaacag
      481 aagccaagca agaatacctt ctgaaggact gtgatttaga gaaaagagag ccagcgctca
      541 ggttcattgt gaagaagaac cctcgccatt cacagtgggg cgatatgaag ctctacttaa
      601 agctacaggt tgtaaagcgg gctcttgaag tttggggtag ccaggaagct ctggaagatg
      661 caaaggaagt gaggcaggaa aaccgagaaa aaatgaagca gaagaagttt gataaaaaag
      721 taaaagaact gcggcgagca gtaagaagca gtgtatggaa aagagaaaca actgctcacc
      781 aacatgaata tggaccagag gaacatttag aagaggacat gtaccgcaag acttgtacct
      841 tgtgtggcca cgaactgaca tatgaaaaaa tgtgactttt aaaacaaatt tatagacaaa
      901 taaagacctt gttcaaaagt tc
//
