LOCUS       NM_001398656            1314 bp    mRNA    linear   ROD 31-MAR-2024
DEFINITION  Rattus norvegicus cyclin-dependent kinase 7 (Cdk7), transcript
            variant 1, mRNA.
ACCESSION   NM_001398656 XM_039103488
VERSION     NM_001398656.1
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 1314)
  AUTHORS   Jeronimo,C., Bataille,A.R. and Robert,F.
  TITLE     The writers, readers, and functions of the RNA polymerase II
            C-terminal domain code
  JOURNAL   Chem Rev 113 (11), 8491-8522 (2013)
   PUBMED   23837720
  REMARK    Review article
REFERENCE   2  (bases 1 to 1314)
  AUTHORS   Wang,Y., Liu,F., Mao,F., Hang,Q., Huang,X., He,S., Wang,Y.,
            Cheng,C., Wang,H., Xu,G., Zhang,T. and Shen,A.
  TITLE     Interaction with cyclin H/cyclin-dependent kinase 7 (CCNH/CDK7)
            stabilizes C-terminal binding protein 2 (CtBP2) and promotes cancer
            cell migration
  JOURNAL   J Biol Chem 288 (13), 9028-9034 (2013)
   PUBMED   23393140
REFERENCE   3  (bases 1 to 1314)
  AUTHORS   Egloff,S., Dienstbier,M. and Murphy,S.
  TITLE     Updating the RNA polymerase CTD code: adding gene-specific layers
  JOURNAL   Trends Genet 28 (7), 333-341 (2012)
   PUBMED   22622228
  REMARK    Review article
REFERENCE   4  (bases 1 to 1314)
  AUTHORS   Fujii,W., Nishimura,T., Kano,K., Sugiura,K. and Naito,K.
  TITLE     CDK7 and CCNH are components of CDK-activating kinase and are
            required for meiotic progression of pig oocytes
  JOURNAL   Biol Reprod 85 (6), 1124-1132 (2011)
   PUBMED   21778139
REFERENCE   5  (bases 1 to 1314)
  AUTHORS   Egly,J.M. and Coin,F.
  TITLE     A history of TFIIH: two decades of molecular biology on a pivotal
            transcription/repair factor
  JOURNAL   DNA Repair (Amst) 10 (7), 714-721 (2011)
   PUBMED   21592869
  REMARK    Review article
REFERENCE   6  (bases 1 to 1314)
  AUTHORS   Kershnar,E., Wu,S.Y. and Chiang,C.M.
  TITLE     Immunoaffinity purification and functional characterization of
            human transcription factor IIH and RNA polymerase II from clonal
            cell lines that conditionally express epitope-tagged subunits of
            the multiprotein complexes
  JOURNAL   J Biol Chem 273 (51), 34444-34453 (1998)
   PUBMED   9852112
REFERENCE   7  (bases 1 to 1314)
  AUTHORS   Reardon,J.T., Ge,H., Gibbs,E., Sancar,A., Hurwitz,J. and Pan,Z.Q.
  TITLE     Isolation and characterization of two human transcription factor
            IIH (TFIIH)-related complexes: ERCC2/CAK and TFIIH
  JOURNAL   Proc Natl Acad Sci U S A 93 (13), 6482-6487 (1996)
   PUBMED   8692841
  REMARK    Erratum:[Proc Natl Acad Sci U S A 1996 Sep 17;93(19):10538]
REFERENCE   8  (bases 1 to 1314)
  AUTHORS   Weiler,M.C., Smith,J.L. and Masters,J.N.
  TITLE     CR16, a novel proline-rich protein expressed in rat brain neurons,
            binds to SH3 domains and is a MAP kinase substrate
  JOURNAL   J Mol Neurosci 7 (3), 203-215 (1996)
   PUBMED   8906616
REFERENCE   9  (bases 1 to 1314)
  AUTHORS   Ossipow,V., Tassan,J.P., Nigg,E.A. and Schibler,U.
  TITLE     A mammalian RNA polymerase II holoenzyme containing all components
            required for promoter-specific transcription initiation
  JOURNAL   Cell 83 (1), 137-146 (1995)
   PUBMED   7553866
REFERENCE   10 (bases 1 to 1314)
  AUTHORS   Serizawa,H., Makela,T.P., Conaway,J.W., Conaway,R.C., Weinberg,R.A.
            and Young,R.A.
  TITLE     Association of Cdk-activating kinase subunits with transcription
            factor TFIIH
  JOURNAL   Nature 374 (6519), 280-282 (1995)
   PUBMED   7885450
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000002.1.
            
            On Dec 21, 2021 this sequence version replaced XM_039103488.1.
            
            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 :: SRR26643298.9380.1,
                                           SRR26360176.2117034.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760383,
                                           SAMEA5760389 [ECO:0006172]
            ##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
            1-172               JAXUCZ010000002.1  33599314-33599485   c
            173-232             JAXUCZ010000002.1  33598993-33599052   c
            233-266             JAXUCZ010000002.1  33593218-33593251   c
            267-334             JAXUCZ010000002.1  33591851-33591918   c
            335-403             JAXUCZ010000002.1  33589803-33589871   c
            404-514             JAXUCZ010000002.1  33586594-33586704   c
            515-633             JAXUCZ010000002.1  33585525-33585643   c
            634-733             JAXUCZ010000002.1  33582765-33582864   c
            734-820             JAXUCZ010000002.1  33581125-33581211   c
            821-970             JAXUCZ010000002.1  33577478-33577627   c
            971-1118            JAXUCZ010000002.1  33575715-33575862   c
            1119-1314           JAXUCZ010000002.1  33574623-33574818   c
FEATURES             Location/Qualifiers
     source          1..1314
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="2"
                     /map="2q12"
     gene            1..1314
                     /gene="Cdk7"
                     /gene_synonym="CAK; P39 Mo15"
                     /note="cyclin-dependent kinase 7"
                     /db_xref="GeneID:171150"
                     /db_xref="RGD:621124"
     exon            1..172
                     /gene="Cdk7"
                     /gene_synonym="CAK; P39 Mo15"
                     /inference="alignment:Splign:2.1.0"
     CDS             107..1147
                     /gene="Cdk7"
                     /gene_synonym="CAK; P39 Mo15"
                     /EC_number="2.7.11.23"
                     /EC_number="2.7.11.22"
                     /note="isoform 1 is encoded by transcript variant 1; cell
                     division protein kinase 7; 39 protein kinase;
                     CDK-activating kinase 1; TFIIH basal transcription factor
                     complex kinase subunit; cyclin-dependent kinase 7 (MO15
                     homolog, Xenopus laevis, cdk-activating kinase);
                     cyclin-dependent kinase 7 (homolog of Xenopus MO15
                     cdk-activating kinase)"
                     /codon_start=1
                     /product="cyclin-dependent kinase 7 isoform 1"
                     /protein_id="NP_001385585.1"
                     /db_xref="GeneID:171150"
                     /db_xref="RGD:621124"
                     /translation="MAVDVKSRAKRYEKLDFLGEGQFATVYKARDKNTNQIVAIKKIK
                     LGHRSEAKDGINRTALREIKLLQELSHPNIIGLLDAFGHKSNISLVFDFMETDLEVII
                     KDNSLVLTPSHIKAYMLMTLQGLEYLHQHWILHRDLKPNNLLLDENGVLKLADFGLAK
                     SFGSPNRAYTHQVVTRWYRAPELLFGARMYGVGVDMWAVGCILAELLLRVPFLPGDSD
                     LDQLTRIFETLGTPTEEQWPDMCSLPDYVTFKSFPGIPLQHIFIAAGDDLLELIQGLF
                     LFNPCTRITASQALRTKYFSNRPGPTPGCQLPRPNCPVEALKEQSNPAMATKRKRAEA
                     LEQGILPKKLIF"
     exon            173..232
                     /gene="Cdk7"
                     /gene_synonym="CAK; P39 Mo15"
                     /inference="alignment:Splign:2.1.0"
     exon            233..266
                     /gene="Cdk7"
                     /gene_synonym="CAK; P39 Mo15"
                     /inference="alignment:Splign:2.1.0"
     exon            267..334
                     /gene="Cdk7"
                     /gene_synonym="CAK; P39 Mo15"
                     /inference="alignment:Splign:2.1.0"
     exon            335..403
                     /gene="Cdk7"
                     /gene_synonym="CAK; P39 Mo15"
                     /inference="alignment:Splign:2.1.0"
     exon            404..514
                     /gene="Cdk7"
                     /gene_synonym="CAK; P39 Mo15"
                     /inference="alignment:Splign:2.1.0"
     exon            515..633
                     /gene="Cdk7"
                     /gene_synonym="CAK; P39 Mo15"
                     /inference="alignment:Splign:2.1.0"
     exon            634..733
                     /gene="Cdk7"
                     /gene_synonym="CAK; P39 Mo15"
                     /inference="alignment:Splign:2.1.0"
     exon            734..820
                     /gene="Cdk7"
                     /gene_synonym="CAK; P39 Mo15"
                     /inference="alignment:Splign:2.1.0"
     exon            821..970
                     /gene="Cdk7"
                     /gene_synonym="CAK; P39 Mo15"
                     /inference="alignment:Splign:2.1.0"
     exon            971..1118
                     /gene="Cdk7"
                     /gene_synonym="CAK; P39 Mo15"
                     /inference="alignment:Splign:2.1.0"
     exon            1119..1314
                     /gene="Cdk7"
                     /gene_synonym="CAK; P39 Mo15"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 atgcgcgtcc agtgaacgga agtagctgtt ggaaactttc agacgcttta aattcctgcg
       61 gggtggaggg cttagtttag ctgctggacg ctggcttctc actcgtatgg ctgtggacgt
      121 gaaatctcga gcgaagcgct atgagaaact ggacttcctc ggagagggac agtttgctac
      181 tgtctataag gccagagata agaacaccaa ccagatcgtc gccattaaga aaatcaaact
      241 tggacacagg tcagaagcta aagatggtat aaatagaaca gccttaaggg agataaagct
      301 cttgcaggaa ctaagtcatc caaatataat tggtctcctt gatgcatttg gacataaatc
      361 gaacattagc cttgtctttg attttatgga gactgaccta gaggttatca taaaggataa
      421 cagtctcgtg ttgaccccat cccacattaa agcctacatg ctgatgactc ttcagggctt
      481 ggaatattta catcagcact ggattctaca cagggatctg aaaccaaaca acttgttgtt
      541 agatgagaat ggagttctga aactggcaga ttttggcctg gccaaatcat ttgggagccc
      601 caatagggct tacacacatc aagttgtgac caggtggtac cgggcccccg agttactgtt
      661 tggagctagg atgtacggtg tgggagtgga catgtgggct gtcggttgta tcttagcaga
      721 attgcttcta agggttcctt ttttgcctgg agattcagac cttgatcagc taacaagaat
      781 atttgaaact ctgggtacac caaccgaaga acagtggcct gacatgtgta gtcttccaga
      841 ttacgtgacg ttcaagagtt tccctggcat ccccctgcag cacatcttca ttgcagctgg
      901 agacgacctg cttgagctca tacaaggctt gttcttattc aacccatgta ctagaattac
      961 agcttcacag gcgttgagga ccaagtactt cagtaatcgt ccagggccaa cacctggatg
     1021 ccagcttcca agaccaaact gtccagtgga agcattaaag gaacagtcaa atccagccat
     1081 ggcgacaaaa cggaaaagag cggaggcctt agaacaagga atattgccca agaagctaat
     1141 tttttagttg cagcgaacaa tggacagttt cactgctgaa agaaatgatc caaaggcaaa
     1201 taacggaaaa aaaataggga atattaaata ctatataaga acttgtaaat actctacaga
     1261 tgtaaaatat gtaaagctat gggttatttt tattaaatgt attttaaaat aaaa
//
