LOCUS       NM_001355542            1764 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Mus musculus COP9 signalosome subunit 7A (Cops7a), transcript
            variant 4, mRNA.
ACCESSION   NM_001355542 XM_006506162
VERSION     NM_001355542.2
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 1764)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   2  (bases 1 to 1764)
  AUTHORS   Koscielny,G., Yaikhom,G., Iyer,V., Meehan,T.F., Morgan,H.,
            Atienza-Herrero,J., Blake,A., Chen,C.K., Easty,R., Di Fenza,A.,
            Fiegel,T., Grifiths,M., Horne,A., Karp,N.A., Kurbatova,N.,
            Mason,J.C., Matthews,P., Oakley,D.J., Qazi,A., Regnart,J.,
            Retha,A., Santos,L.A., Sneddon,D.J., Warren,J., Westerberg,H.,
            Wilson,R.J., Melvin,D.G., Smedley,D., Brown,S.D., Flicek,P.,
            Skarnes,W.C., Mallon,A.M. and Parkinson,H.
  TITLE     The International Mouse Phenotyping Consortium Web Portal, a
            unified point of access for knockout mice and related phenotyping
            data
  JOURNAL   Nucleic Acids Res 42 (Database issue), D802-D809 (2014)
   PUBMED   24194600
REFERENCE   3  (bases 1 to 1764)
  AUTHORS   Dessau,M., Chamovitz,D.A. and Hirsch,J.A.
  TITLE     Expression, purification and crystallization of a PCI domain from
            the COP9 signalosome subunit 7 (CSN7)
  JOURNAL   Acta Crystallogr Sect F Struct Biol Cryst Commun 62 (Pt 11),
            1138-1140 (2006)
   PUBMED   17077498
  REMARK    GeneRIF: This protein was purified to homogeneity and screened for
            crystallization.
REFERENCE   4  (bases 1 to 1764)
  AUTHORS   Berse,M., Bounpheng,M., Huang,X., Christy,B., Pollmann,C. and
            Dubiel,W.
  TITLE     Ubiquitin-dependent degradation of Id1 and Id3 is mediated by the
            COP9 signalosome
  JOURNAL   J Mol Biol 343 (2), 361-370 (2004)
   PUBMED   15451666
REFERENCE   5  (bases 1 to 1764)
  AUTHORS   Piao,Y., Ko,N.T., Lim,M.K. and Ko,M.S.
  TITLE     Construction of long-transcript enriched cDNA libraries from
            submicrogram amounts of total RNAs by a universal PCR amplification
            method
  JOURNAL   Genome Res 11 (9), 1553-1558 (2001)
   PUBMED   11544199
REFERENCE   6  (bases 1 to 1764)
  AUTHORS   Cui,D.X., Zeng,G.Y., Wang,F., Xu,J.R., Ren,D.Q., Guo,Y.H.,
            Tian,F.R., Yan,X.J., Hou,Y. and Su,C.Z.
  TITLE     Mechanism of exogenous nucleic acids and their precursors improving
            the repair of intestinal epithelium after gamma-irradiation in mice
  JOURNAL   World J Gastroenterol 6 (5), 709-717 (2000)
   PUBMED   11819679
REFERENCE   7  (bases 1 to 1764)
  AUTHORS   Deng,X.W., Dubiel,W., Wei,N., Hofmann,K., Mundt,K., Colicelli,J.,
            Kato,J., Naumann,M., Segal,D., Seeger,M., Carr,A., Glickman,M. and
            Chamovitz,D.A.
  TITLE     Unified nomenclature for the COP9 signalosome and its subunits: an
            essential regulator of development
  JOURNAL   Trends Genet 16 (5), 202-203 (2000)
   PUBMED   10782111
  REMARK    Erratum:[Trends Genet 2000 Jul;16(7):289]
REFERENCE   8  (bases 1 to 1764)
  AUTHORS   Wei,N., Tsuge,T., Serino,G., Dohmae,N., Takio,K., Matsui,M. and
            Deng,X.W.
  TITLE     The COP9 complex is conserved between plants and mammals and is
            related to the 26S proteasome regulatory complex
  JOURNAL   Curr Biol 8 (16), 919-922 (1998)
   PUBMED   9707402
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC164563.4.
            
            On Mar 23, 2020 this sequence version replaced NM_001355542.1.
            
            Transcript Variant: This variant (4) represents use of an alternate
            5' UTR, compared to variant 1, and encodes isoform 1. Variants 1,
            3-6, and 11 all encode the same isoform (1).
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR9219381.9838.1,
                                           SRR5189685.122239.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164131, SAMN01164143
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-111               AC164563.4         141665-141775       c
            112-316             AC164563.4         140987-141191       c
            317-392             AC164563.4         138885-138960       c
            393-481             AC164563.4         138621-138709       c
            482-684             AC164563.4         137421-137623       c
            685-790             AC164563.4         136354-136459       c
            791-942             AC164563.4         136062-136213       c
            943-1764            AC164563.4         135079-135900       c
FEATURES             Location/Qualifiers
     source          1..1764
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="6"
                     /map="6 59.17 cM"
     gene            1..1764
                     /gene="Cops7a"
                     /gene_synonym="D6Ertd35e; SGN7a"
                     /note="COP9 signalosome subunit 7A"
                     /db_xref="GeneID:26894"
                     /db_xref="MGI:MGI:1349400"
     exon            1..111
                     /gene="Cops7a"
                     /gene_synonym="D6Ertd35e; SGN7a"
                     /inference="alignment:Splign:2.1.0"
     exon            112..316
                     /gene="Cops7a"
                     /gene_synonym="D6Ertd35e; SGN7a"
                     /inference="alignment:Splign:2.1.0"
     CDS             155..982
                     /gene="Cops7a"
                     /gene_synonym="D6Ertd35e; SGN7a"
                     /note="isoform 1 is encoded by transcript variant 4; COP9
                     signalosome complex subunit 7a; COP9 (constitutive
                     photomorphogenic) homolog, subunit 7a; signalosome subunit
                     7a; JAB1-containing signalosome subunit 7a; COP9 complex
                     S7a; COP9 (constitutive photomorphogenic), subunit 7a"
                     /codon_start=1
                     /product="COP9 signalosome complex subunit 7a isoform 1"
                     /protein_id="NP_001342471.1"
                     /db_xref="CCDS:CCDS20539.1"
                     /db_xref="GeneID:26894"
                     /db_xref="MGI:MGI:1349400"
                     /translation="MSAEVKVTGQNQEQFLLLAKSAKGAALATLIHQVLEAPGVYVFG
                     ELLDMPNVRELAESDFASTFRLLTVFAYGTYADYLAEARNLPPLTDAQKNKLRHLSVV
                     TLAAKVKCIPYAVLLEALALRNVRQLEDLVIEAVYADVLRGSLDQRNQRLEVDYSIGR
                     DIQRQDLSAIAQTLQEWCVGCEVVLSGIEEQVSRANQHKEQQLGLKQQIESEVANLKK
                     TIKVTTAAAAAATSQDPEQHLTELREPASGTNQRQPSKKASKGKGLRGSAKIWSKSN"
     exon            317..392
                     /gene="Cops7a"
                     /gene_synonym="D6Ertd35e; SGN7a"
                     /inference="alignment:Splign:2.1.0"
     exon            393..481
                     /gene="Cops7a"
                     /gene_synonym="D6Ertd35e; SGN7a"
                     /inference="alignment:Splign:2.1.0"
     exon            482..684
                     /gene="Cops7a"
                     /gene_synonym="D6Ertd35e; SGN7a"
                     /inference="alignment:Splign:2.1.0"
     exon            685..790
                     /gene="Cops7a"
                     /gene_synonym="D6Ertd35e; SGN7a"
                     /inference="alignment:Splign:2.1.0"
     exon            791..942
                     /gene="Cops7a"
                     /gene_synonym="D6Ertd35e; SGN7a"
                     /inference="alignment:Splign:2.1.0"
     exon            943..1764
                     /gene="Cops7a"
                     /gene_synonym="D6Ertd35e; SGN7a"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1734..1739
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cops7a"
                     /gene_synonym="D6Ertd35e; SGN7a"
                     /note="hexamer: AATAAA"
     polyA_site      1764
                     /gene="Cops7a"
                     /gene_synonym="D6Ertd35e; SGN7a"
                     /note="major polyA site"
ORIGIN      
        1 gcgagcggct agagcggccc tgcggggagg tggcaggaaa ggcttgggag ccgctgccgg
       61 aggtgacgga gcggccgccc cgccccgtgc gctgggagac gaggcttcca gctccagaaa
      121 tcttgaggcc agagccccgc acctcggcgc agccatgagt gcggaggtga aggtgacagg
      181 gcagaaccaa gagcagtttc tgctccttgc caagtcggct aagggggcgg cactggccac
      241 actcatccac caggtgctgg aggcccctgg tgtctacgtg tttggggaac tgctggatat
      301 gcctaatgtt agagagctgg cagaaagcga ctttgcctcc accttccggc tgctcacagt
      361 gtttgcctat gggacctatg cggactactt agctgaagcc aggaatctcc ccccactgac
      421 tgacgcacag aagaataagc ttcgacatct gtcagttgtc actctggctg ccaaagtcaa
      481 gtgtatccca tatgcagtgt tgctggaggc ccttgccctt cgaaacgtgc gccagctgga
      541 agaccttgtg atcgaggctg tgtatgctga tgtccttcgt ggctctctgg accagcgcaa
      601 tcagcggcta gaggttgatt acagcatcgg gcgggacatc cagcgccagg acctcagtgc
      661 catcgcccag accctgcaag agtggtgcgt gggctgtgag gttgtgttgt cgggcatcga
      721 agagcaggtc agccgtgcca accagcacaa ggagcagcag ctgggcctga agcagcagat
      781 cgaaagtgag gttgccaacc ttaagaaaac cattaaagtt acgacagcag ctgctgctgc
      841 agccacctcc caggatcctg agcaacacct gacagagctg agagaaccag cttctggcac
      901 caaccagcgc cagcccagca agaaagcctc caagggcaag ggactccgag ggagcgccaa
      961 gatttggtcc aagtcgaact gaaaggactt gtttcttccc tgggaatgtg gggtcccagc
     1021 tgcctacctg cctacccctt aggagtcctc agagccttcc tgtgcccctg gccagctgat
     1081 aatgctagtt cattactttt catctcctcc acccccaagc ataagccaca ccctctgtag
     1141 ggaggaggcc agtgcaggtc atgttctgtt ggtacctctt atgtgttcca tgctcttccc
     1201 cagcacgctt gctctcatcg tttttccgca ctgtgtctgc ccattacccc tgtcattgag
     1261 caggttggca gtcctatgga gggtgctggc tcttaaccac ccacacctac ccctgcatgc
     1321 ctaatctgca gttcctcctc ctccccttgc ctagtgggct gcatctgaaa agccatgggg
     1381 aagggggtct ccaccttcat tccagcctta gagttctgga gccagtctgc taccctggga
     1441 gtcgctggac attttcctcc cagaacccca tcacactaca attgtttctt tcctctctca
     1501 tctccttggg cctggggata ctgctgcttc agtgacccca gagcctgaga acagctattt
     1561 ttgagatgtt aagaaatggt tctttgttgc tcatcatctt aggaagccca atggaaatcc
     1621 tggaaggatt tatatctcct cctgtggttc tggtggggaa ggaaatatag attgtatatt
     1681 aaaaataaaa aatatatatg aataggtcta tatatattga cacatgacac agaaataaat
     1741 ctatgagaaa tctatgtaca aaaa
//
