LOCUS       NM_009938               4629 bp    mRNA    linear   ROD 29-JUL-2024
DEFINITION  Mus musculus coatomer protein complex subunit alpha (Copa), mRNA.
ACCESSION   NM_009938
VERSION     NM_009938.4
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 4629)
  AUTHORS   Elenbaas,J.S., Pudupakkam,U., Ashworth,K.J., Kang,C.J., Patel,V.,
            Santana,K., Jung,I.H., Lee,P.C., Burks,K.H., Amrute,J.M.,
            Mecham,R.P., Halabi,C.M., Alisio,A., Di Paola,J. and Stitziel,N.O.
  TITLE     SVEP1 is an endogenous ligand for the orphan receptor PEAR1
  JOURNAL   Nat Commun 14 (1), 850 (2023)
   PUBMED   36792666
  REMARK    Erratum:[Nat Commun. 2023 Mar 17;14(1):1511. doi:
            10.1038/s41467-023-37005-x. PMID: 36932061]
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4629)
  AUTHORS   Deng,Z., Chong,Z., Law,C.S., Mukai,K., Ho,F.O., Martinu,T.,
            Backes,B.J., Eckalbar,W.L., Taguchi,T. and Shum,A.K.
  TITLE     A defect in COPI-mediated transport of STING causes immune
            dysregulation in COPA syndrome
  JOURNAL   J Exp Med 217 (11) (2020)
   PUBMED   32725126
REFERENCE   3  (bases 1 to 4629)
  AUTHORS   English,A., Craig,S.L., Flatt,P.R. and Irwin,N.
  TITLE     Individual and combined effects of GIP and xenin on
            differentiation, glucose uptake and lipolysis in 3T3-L1 adipocytes
  JOURNAL   Biol Chem 401 (11), 1293-1303 (2020)
   PUBMED   32769216
  REMARK    GeneRIF: Individual and combined effects of GIP and xenin on
            differentiation, glucose uptake and lipolysis in 3T3-L1 adipocytes.
REFERENCE   4  (bases 1 to 4629)
  AUTHORS   Deng,Z., Law,C.S., Ho,F.O., Wang,K.M., Jones,K.D., Shin,J.S. and
            Shum,A.K.
  TITLE     A Defect in Thymic Tolerance Causes T Cell-Mediated Autoimmunity in
            a Murine Model of COPA Syndrome
  JOURNAL   J Immunol 204 (9), 2360-2373 (2020)
   PUBMED   32198142
REFERENCE   5  (bases 1 to 4629)
  AUTHORS   Custer,S.K., Astroski,J.W., Li,H.X. and Androphy,E.J.
  TITLE     Interaction between alpha-COP and SMN ameliorates disease phenotype
            in a mouse model of spinal muscular atrophy
  JOURNAL   Biochem Biophys Res Commun 514 (2), 530-537 (2019)
   PUBMED   31060774
  REMARK    GeneRIF: Interaction between alpha-COP and SMN ameliorates disease
            phenotype in a mouse model of spinal muscular atrophy.
REFERENCE   6  (bases 1 to 4629)
  AUTHORS   Kibar,Z., Vogan,K.J., Groulx,N., Justice,M.J., Underhill,D.A. and
            Gros,P.
  TITLE     Ltap, a mammalian homolog of Drosophila Strabismus/Van Gogh, is
            altered in the mouse neural tube mutant Loop-tail
  JOURNAL   Nat Genet 28 (3), 251-255 (2001)
   PUBMED   11431695
REFERENCE   7  (bases 1 to 4629)
  AUTHORS   Chow,V.T., Sakharkar,M.K., Lim,D.P. and Yeo,W.M.
  TITLE     Phylogenetic relationships of the seven coat protein subunits of
            the coatomer complex, and comparative sequence analysis of murine
            xenin and proxenin
  JOURNAL   Biochem Genet 39 (5-6), 201-211 (2001)
   PUBMED   11530856
REFERENCE   8  (bases 1 to 4629)
  AUTHORS   Doudney,K., Murdoch,J.N., Paternotte,C., Bentley,L., Gregory,S.,
            Copp,A.J. and Stanier,P.
  TITLE     Comparative physical and transcript maps of approximately 1 Mb
            around loop-tail, a gene for severe neural tube defects on distal
            mouse chromosome 1 and human chromosome 1q22-q23
  JOURNAL   Genomics 72 (2), 180-192 (2001)
   PUBMED   11401431
REFERENCE   9  (bases 1 to 4629)
  AUTHORS   Underhill,D.A., Vogan,K.J., Kibar,Z., Morrison,J., Rommens,J. and
            Gros,P.
  TITLE     Transcription mapping and expression analysis of candidate genes in
            the vicinity of the mouse Loop-tail mutation
  JOURNAL   Mamm Genome 11 (8), 633-638 (2000)
   PUBMED   10920231
REFERENCE   10 (bases 1 to 4629)
  AUTHORS   Eddleston,J., Murdoch,J.N., Copp,A.J. and Stanier,P.
  TITLE     Physical and transcriptional map of a 3-Mb region of mouse
            chromosome 1 containing the gene for the neural tube defect mutant
            loop-tail (Lp)
  JOURNAL   Genomics 56 (2), 149-159 (1999)
   PUBMED   10051400
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CF734857.1, AK043479.1, AC158930.3 and AW537456.1.
            
            On Apr 15, 2009 this sequence version replaced NM_009938.3.
            
            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 :: AK043479.1, BC024070.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-274               CF734857.1         1-274
            275-1458            AK043479.1         1-1184
            1459-1459           AC158930.3         186021-186021
            1460-2635           AK043479.1         1186-2361
            2636-2636           AC158930.3         194255-194255
            2637-4621           AK043479.1         2363-4347
            4622-4629           AW537456.1         1-8                 c
FEATURES             Location/Qualifiers
     source          1..4629
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="1"
                     /map="1 79.54 cM"
     gene            1..4629
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /note="coatomer protein complex subunit alpha"
                     /db_xref="GeneID:12847"
                     /db_xref="MGI:MGI:1334462"
     exon            1..421
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            422..535
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            536..609
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            610..690
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            691..767
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            768..877
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            878..987
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            988..1087
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            1088..1223
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            1224..1306
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            1307..1457
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            1458..1524
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            1525..1600
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            1601..1683
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            1684..1823
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            1824..1909
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            1910..2048
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            2049..2211
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            2212..2358
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            2359..2548
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            2549..2644
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            2645..2733
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            2734..2857
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            2858..2947
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            2948..3057
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            3058..3135
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            3136..3204
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            3205..3341
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            3342..3528
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            3529..3639
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            3640..3801
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            3802..3996
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     exon            3997..4629
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4603..4608
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /note="hexamer: AATAAA"
     polyA_site      4622
                     /gene="Copa"
                     /gene_synonym="xenin"
                     /note="major polyA site"
ORIGIN      
        1 gcctgcacta gcgatgggcc gttccggacg gctcctctta aagaccagag ctccggggtg
       61 gggtgacctc acctgccagt accacggaaa aagacagaag aagaagaccc cgacttcctg
      121 ggtcaggccc agagccgccc ctagtcgtag ccatcttgcc tctccgctgg gcggaagcct
      181 caggtccctt ccagactcgt agcggcctct ctaggcttcc gctagcatcg tctctgtggc
      241 ccagcgctcc agagaccgga agtccttgtc cgaggagctt ccgggagccg cgacccggga
      301 gtagctgacg tggaagcctt gggagtgcca ccgggagcgg cgggacccgc taacctgacc
      361 taggagcccg aggcctgaag gatgctaacc aaattcgaga cgaagagcgc gcgggtcaaa
      421 ggccttagtt ttcatcctaa aagaccctgg atcctgacca gtttacacaa tggggtcatc
      481 cagttatggg actatcggat gtgcacccta attgacaaat ttgatgaaca tgatggtcca
      541 gtgcgtggca ttgacttcca taagcagcag ccactgttcg tctctggagg cgatgattat
      601 aagattaagg tttggaatta caaacttcgg cgctgcctgt tcacattgct cgggcacttg
      661 gattatatcc gtacaacgtt tttccatcat gaatatcctt ggattctgag cgcctcagat
      721 gatcagacca ttcgggtgtg gaactggcag tctagaacct gtgtctgtgt gttaacgggg
      781 cacaaccatt atgtaatgtg tgctcagttc cacccctctg aagacctggt ggtatcagct
      841 agcctggacc agactgtccg cgtttgggat atttctggtc taaggaagaa aaacttgtct
      901 cctggtgcgg tggagtcgga tgtgagagga ataactggcg ttgatctgtt tggaaccacg
      961 gatgccgtgg tgaagcatgt gctagagggt catgaccgtg gagtcaactg ggctgccttc
     1021 cacccgacta tgccccttat tgtatctggg gcagatgacc ggcaagtgaa gatctggcgt
     1081 atgaatgaat caaaggcatg ggaggttgac acctgccggg gccattacaa caatgtgtct
     1141 tgtgctgttt ttcaccctcg ccaagagttg atcctcagca attctgaaga caagagtatt
     1201 cgagtctggg atatgtctaa gcggactggg gttcagactt tccgtaggga tcatgatcgc
     1261 ttctgggtcc tggctgccca tcccaacctt aacctctttg cagcaggcca tgatggtggg
     1321 atgattgtat ttaagctgga acgtgagcgt cctgcctatg ctgttcatgg taacatgctg
     1381 cattatgtaa aggaccgatt cctccgtcag ctggatttca acagctccaa agatgtagct
     1441 gtgatgcagt tgcggagcgg ttctaagttt ccagtattca acatgtcata caatccagca
     1501 gaaaacgcag tgctgctctg caccagagca agcaatctag agaacagtac ctacgaccta
     1561 tacaccatcc ccaaagacgc agactcccag aaccctgacg cccctgaagg gaaacgatcc
     1621 tcaggcctga cagcggtttg ggttgctcgg aatcggtttg ctgtcctaga tcgcatgcat
     1681 tcacttctga ttaaaaacct gaaaaatgag atcaccaaga aaatccaggt gccaaactgt
     1741 gatgaaatct tctatgctgg tacaggcaac ctcctgcttc gggatgcaga ttccatcaca
     1801 ctctttgacg tccagcagaa gcgaactctg gcatcagtga agatttccaa ggtgaaatat
     1861 gttatctggt cggcagacat gtctcatgta gcgttactgg ccaagcatgc cattgtgatc
     1921 tgtaaccgca agctggatgc tctgtgtaac attcatgaga acattcgtgt caagagtggg
     1981 gcctgggatg aaagtggggt gtttatctat accacaagca accacatcaa atatgctgtc
     2041 accactgggg accatgggat tatccgaact ctggatttac ccatctatgt caccagagtg
     2101 aagggcaata atgtatactg cctagacaga gagtgtcgtc ctcgggtgct aaccattgat
     2161 cccactgagt tcaagttcaa actggccctg atcaacagaa agtatgatga ggtactccac
     2221 atggtgagga acgctaagct ggtaggccag tcaatcatcg cttatctcca gaagaagggc
     2281 tatcctgaag tggcgctgca ttttgtaaag gatgagaaaa ctcgtttcag cctggccctg
     2341 gagtgtggaa acattgagat tgctctagag gcagccaaag ccctggacga caagaactgc
     2401 tgggagaagc taggagaagt ggccctgcta cagggcaatc accaaattgt agagatgtgc
     2461 tatcagcgca ccaaaaactt tgacaaactt tccttcctgt accttattac tggcaacctg
     2521 gagaaacttc gaaagatgat gaagatcgct gagatccgaa aggacatgag tggccattat
     2581 cagaatgccc tatacctagg tgatgtgtca gagagagtac ggatcctgaa gaactgtggg
     2641 cagaaatccc tagcctatct ctcagctgct acccatggct tagatgaaga agctgagagc
     2701 ctgaaggaaa cctttgaccc tgagaaggag acaatcccag acattgatcc taatgccaag
     2761 ctgctccagc cacctgcacc tatcatgcca ttggatacaa actggccctt actgaccgtg
     2821 tccaaagggt tctttgaagg ctccattgca agcaagggga agggaggagc attggctgct
     2881 gacattgaca tcgacactgt aggcactgaa ggctggggag aggacgcaga gctgcagctg
     2941 gatgaagatg ggtttgtgga ggctccagaa ggtttgggag aggatgttct tggaaaggga
     3001 caagaagaag gaggtggctg ggatgtagaa gaagatttgg agctcccacc tgagctggat
     3061 gtaccctctg gggtgtctgg tagtgctgaa gatgggttct ttgtgccccc aaccaaggga
     3121 acaagcccaa cgcaaatctg gtgcaataac tcccagcttc cagtagatca catcttggca
     3181 ggttcttttg aaacagccat gcggcttctc catgatcagg tgggagtaat ccagtttggc
     3241 ccctataagc aactgttcct acagacatat gcccgaggcc gcaccaccta tcaagcgctg
     3301 ccctgcttgc cctccatgta tagttaccct aatcgcaatt ggaaggatgc agggctaaag
     3361 aatggagtac cagctgtagg cctaaagctt aatgacctga tccaacgttt gcaactgtgt
     3421 tatcagctca ccacagttgg caagtttgag gaagctgtgg aaaaattccg ttccatccta
     3481 ctcagtgtgc ctcttcttgt tgtggacaat aaacaggaga ttgcagaggc ccagcagctc
     3541 atcaccattt gccgtgaata cattgtgggt ttgtgcatgg agatagaaag gaagaagcta
     3601 cctaaggaga ccctagacca gcagaagcgc atctgtgaga tggcagccta cttcacacac
     3661 tcaaatctgc agcctgtgca tatgatcttg gtgctgcgga cagccctcaa ccttttcttc
     3721 aagctcaaga acttcaagac agctgccacc tttgcccgac gcctgctgga acttgggccc
     3781 aagcctgaag tagctcagca gacaagaaaa atcttatctg cctgtgagaa aaaccccaca
     3841 gatgcctgcc agctcaatta tgacatgcac aacccctttg acatttgtgc tgcatcttac
     3901 cggcccatct accgtggaaa accagtggag aagtgtccac tcagtggggc ctgctattcc
     3961 cctgagttca aggggcaaat ctgcagggtc actacagtga cagagattgg caaagatgtg
     4021 attgggctga ggatcagtcc tcttcagttt cgctaaggcc cttccttcgc gtgcatggtt
     4081 aaccccatac tgttcttcag agtctcccct tacagccaca ttcagcttgt tgatgttggt
     4141 tctccctaaa acgtcatgtc ctctctctgc tattgcaaat cagaagtttc aagcttgact
     4201 ttctggttct tgcagacctc tgccttgacg gttactgtgc ttgtgatcat agatgacttt
     4261 gcctttcagc ttaggccttc caaggaacaa tgaaaactat gtgctggcca tttgtttatc
     4321 agattcttag tatatactcc tcccttccca ccaccttcct gtcaattcca gtacgagaca
     4381 gaaggattca ataaacgcca ctttccccag ccacgcgagt tgttaactat cccatctttt
     4441 tcttgggcat ttaatgtcat aaataggttc ctcctttatg tggcccccac acttcaggct
     4501 gagaagaagc catttggttt tgcaaaatgt gtaccatttt tcattgattt gtttctatcc
     4561 tttataacat accatcgtcg ttatgttctg ttgccctcac taaataaagt aaatttctga
     4621 gagcctcct
//
