LOCUS       NM_001382411            2171 bp    mRNA    linear   ROD 05-AUG-2024
DEFINITION  Mus musculus coiled-coil domain containing 9 (Ccdc9), transcript
            variant 3, mRNA.
ACCESSION   NM_001382411 XM_006539921
VERSION     NM_001382411.3
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 2171)
  AUTHORS   Wu,L., Xu,H., Zhang,W., Chen,Z., Li,W. and Ke,W.
  TITLE     Circular RNA circCCDC9 alleviates ischaemic stroke
            ischaemia/reperfusion injury via the Notch pathway
  JOURNAL   J Cell Mol Med 24 (24), 14152-14159 (2020)
   PUBMED   33124180
  REMARK    GeneRIF: Circular RNA circCCDC9 alleviates ischaemic stroke
            ischaemia/reperfusion injury via the Notch pathway.
REFERENCE   2  (bases 1 to 2171)
  AUTHORS   Stryke,D., Kawamoto,M., Huang,C.C., Johns,S.J., King,L.A.,
            Harper,C.A., Meng,E.C., Lee,R.E., Yee,A., L'Italien,L.,
            Chuang,P.T., Young,S.G., Skarnes,W.C., Babbitt,P.C. and Ferrin,T.E.
  TITLE     BayGenomics: a resource of insertional mutations in mouse embryonic
            stem cells
  JOURNAL   Nucleic Acids Res 31 (1), 278-281 (2003)
   PUBMED   12520002
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC156630.6.
            
            On Apr 22, 2021 this sequence version replaced NM_001382411.2.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR9219381.104163.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164139 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            CDS uses downstream in-frame AUG :: upstream AUG and CDS extension
                                                is not conserved
            RefSeq Select criteria           :: based on conservation,
                                                expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-81                AC156630.6         167386-167466       c
            82-133              AC156630.6         165181-165232       c
            134-238             AC156630.6         164957-165061       c
            239-337             AC156630.6         163438-163536       c
            338-586             AC156630.6         163043-163291       c
            587-670             AC156630.6         161544-161627       c
            671-844             AC156630.6         161284-161457       c
            845-1026            AC156630.6         159043-159224       c
            1027-1073           AC156630.6         157413-157459       c
            1074-1209           AC156630.6         157180-157315       c
            1210-1303           AC156630.6         156888-156981       c
            1304-1676           AC156630.6         156424-156796       c
            1677-1796           AC156630.6         155942-156061       c
            1797-2171           AC156630.6         154728-155102       c
FEATURES             Location/Qualifiers
     source          1..2171
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="7"
                     /map="7 8.78 cM"
     gene            1..2171
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /note="coiled-coil domain containing 9"
                     /db_xref="GeneID:243846"
                     /db_xref="MGI:MGI:1921443"
     exon            1..81
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            82..133
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /inference="alignment:Splign:2.1.0"
     CDS             131..1900
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /note="isoform 3 is encoded by transcript variant 3;
                     coiled-coil domain-containing protein 9"
                     /codon_start=1
                     /product="coiled-coil domain-containing protein 9 isoform
                     3"
                     /protein_id="NP_001369340.2"
                     /db_xref="GeneID:243846"
                     /db_xref="MGI:MGI:1921443"
                     /translation="MATTLDLKSKEEKDAELDKRIEALRRKNEALIRRYQEIEEDRKK
                     AELEGVAVTAPRKSRSMEKENMAVEEKSLGPSRRTPGTPRPPGASRGGRTHPQQGGRA
                     GVGRASQGWEDGAGEQLRGGPGGRGRRGRGRGSPHLLGAGDNSTSDRKSKEWEERRRQ
                     NIEKMNEEMEKIAEYERNQREGVLEPNPVRNFLDDPRRRGGPLEESERDRREGSRRHG
                     RNWGGSDFERVRSGLEQERQGRRAGLGSGGDMTMSMTGRERSEYLRWKQEREKIDQER
                     LQRHRKPTGQWRREWDAEKTDGMFKDGPAPTHELSHRYDDQAWARPPKPPTFGEFLSQ
                     HKAEVSSRRRRKNSRPQAKVAPRAYSDHDNRWETREEAVSSAPESSQSISLEETPTQQ
                     ASETPAPAHRPPEEDGEEDVGEEEEGEEEGEDEEDEEWEDVSEDVTEEEEEEEEEFEE
                     DEEGPKDQEAATVPDHQPEAEPAGKPTCEQVDPVPAGSQELLSPVPVEPPIPFSPSED
                     HQPVSDWGGDQPPLASLESGPSLAGTPKSSEEEGPEASPGGMHEAGGEVGPEGQETAE
                     ITDFQRVRFCKVVAAAPPPGAAR"
     exon            134..238
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            239..337
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            338..586
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            587..670
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            671..844
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            845..1026
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1027..1073
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1074..1209
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1210..1303
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1304..1676
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1677..1796
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1797..2171
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2150..2155
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /note="hexamer: ATTAAA"
     polyA_site      2171
                     /gene="Ccdc9"
                     /gene_synonym="2600011L02Rik"
                     /note="major polyA site"
ORIGIN      
        1 agtgacgagt gaggcccggg agctgtggac gcgaaggcgg acgaagccgg agtcgcagac
       61 accgcggggt ctccgggaca ggagcttcca gtgctacatg tattttctgt gagggagatt
      121 acagccaatg atggctacca cactagattt gaagtcaaag gaggagaagg atgcagaatt
      181 ggacaagagg atcgaggctc ttcgtcggaa gaatgaggcc ctcatccggc gctaccagga
      241 gattgaggag gatcggaaaa aagctgaact ggagggcgtg gcagtgacag ccccccggaa
      301 gagccgctcc atggagaagg agaatatggc agtggaggag aagagcctgg gtccctctcg
      361 gaggactcct gggactcctc gacccccagg ggccagcaga gggggccgga cccatcccca
      421 gcagggaggc cgggcaggcg taggccgggc atcccaaggc tgggaggatg gtgctgggga
      481 gcagcttcga gggggtcctg ggggccgggg ccggaggggc cggggccggg gatcccctca
      541 tctcttaggg gcaggagaca actcaacctc tgatcgaaag tctaaggagt gggaggagcg
      601 gcgcaggcag aatatcgaga agatgaatga ggagatggag aagattgccg aatatgagcg
      661 caaccagcgg gaaggggtgc tggagcccaa cccagtacgc aacttcctgg atgatccccg
      721 acgtcggggt gggcccctcg aggagtctga gagggatcgc cgggaaggca gccgccggca
      781 tggacgcaac tggggaggct cagattttga gcgggtgcgc tctggcttgg aacaggagcg
      841 acagggccgc agggctggcc tgggcagtgg gggcgacatg acgatgtcca tgacgggccg
      901 ggagaggtca gagtacctgc gctggaagca ggagagggag aagatcgacc aggaacgtct
      961 gcagcgacac cgcaagccca ccgggcagtg gcggcgggag tgggatgccg agaagaccga
     1021 tggcatgttc aaggatggcc cagcccctac ccatgaactg tcccaccgct atgatgacca
     1081 agcttgggca agaccaccta agcctcccac ttttggagag ttcctttctc agcacaaagc
     1141 tgaagtcagc agccgcagaa ggagaaagaa cagccgacct caggccaagg tggcccctcg
     1201 tgcctatagt gaccacgata atcgctggga gacaagagag gaagctgtgt cctcggcccc
     1261 cgagtcctct cagtccatat ccctggagga gacacccaca cagcaggctt ctgagacccc
     1321 agctccagct catcggcctc ccgaggaaga tggtgaggaa gatgtggggg aagaggagga
     1381 gggagaagaa gagggggaag atgaggagga tgaagagtgg gaggacgtga gtgaagatgt
     1441 tactgaggag gaggaggaag aggaagaaga gtttgaagag gatgaagagg gtcctaagga
     1501 ccaggaagca gcaactgttc ctgatcacca gcctgaagct gagcctgctg ggaagcccac
     1561 ctgtgagcag gtggaccctg tgcctgccgg gtcccaggag ttgctgtccc cagtccctgt
     1621 tgaacctccc atccccttct caccctctga ggaccaccag cctgtgtctg actggggagg
     1681 tgaccagcca ccccttgcct ccttggagag cgggcccagc ttggcaggaa ccccgaagtc
     1741 ttctgaagaa gaggggcctg aggcatctcc aggtgggatg catgaagctg gtggagaggt
     1801 gggccccgag ggccaggaga cggcggagat cacagacttc cagagggtgc gtttctgcaa
     1861 ggtggtggcg gctgctccgc cgccgggggc tgcccgctga cagcgccagc agaccagggt
     1921 gcctcgctct gtactaacct tcagctcctc tgcttctgct acactccgtc caggccaggg
     1981 ttaaacttag tgggggagga agcaggttag caacgagccc ggcccgaggg gagtcttcta
     2041 aattcgctga ggacccagtg gtgccagtcc gaccgcactc gtctggtcga accctcggag
     2101 tcagtccctg tgaggcctgg gtgtgcagga acctgcagct agggattgaa ttaaacgcgt
     2161 gctaccgcca a
//
