LOCUS       NM_138598               2635 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus VCP nuclear cofactor family member 1 (Vcf1),
            transcript variant 2, mRNA.
ACCESSION   NM_138598
VERSION     NM_138598.5
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 2635)
  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 2635)
  AUTHORS   Ingham,N.J., Pearson,S.A., Vancollie,V.E., Rook,V., Lewis,M.A.,
            Chen,J., Buniello,A., Martelletti,E., Preite,L., Lam,C.C.,
            Weiss,F.D., Powis,Z., Suwannarat,P., Lelliott,C.J., Dawson,S.J.,
            White,J.K. and Steel,K.P.
  TITLE     Mouse screen reveals multiple new genes underlying mouse and human
            hearing loss
  JOURNAL   PLoS Biol 17 (4), e3000194 (2019)
   PUBMED   30973865
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2635)
  AUTHORS   Ko,M.S., Threat,T.A., Wang,X., Horton,J.H., Cui,Y., Wang,X.,
            Pryor,E., Paris,J., Wells-Smith,J., Kitchen,J.R., Rowe,L.B.,
            Eppig,J., Satoh,T., Brant,L., Fujiwara,H., Yotsumoto,S. and
            Nakashima,H.
  TITLE     Genome-wide mapping of unselected transcripts from extraembryonic
            tissue of 7.5-day mouse embryos reveals enrichment in the t-complex
            and under-representation on the X chromosome
  JOURNAL   Hum Mol Genet 7 (12), 1967-1978 (1998)
   PUBMED   9811942
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AV572367.1, AL603706.13, AK087540.1 and BC056429.1.
            
            On Jun 24, 2007 this sequence version replaced NM_138598.4.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The extent of this transcript is
            supported by transcript alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC056429.1, SRR1660815.214784.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164135, SAMN01164139
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-13                AV572367.1         2-14
            14-90               AL603706.13        57580-57656         c
            91-2613             AK087540.1         2-2524
            2614-2635           BC056429.1         2356-2377
FEATURES             Location/Qualifiers
     source          1..2635
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="11"
                     /map="11 79.12 cM"
     gene            1..2635
                     /gene="Vcf1"
                     /gene_synonym="D11Wsu99e; Fam104a"
                     /note="VCP nuclear cofactor family member 1"
                     /db_xref="GeneID:28081"
                     /db_xref="MGI:MGI:106351"
     exon            1..290
                     /gene="Vcf1"
                     /gene_synonym="D11Wsu99e; Fam104a"
                     /inference="alignment:Splign:2.1.0"
     CDS             67..624
                     /gene="Vcf1"
                     /gene_synonym="D11Wsu99e; Fam104a"
                     /note="isoform 2 is encoded by transcript variant 2;
                     family with sequence similarity 104, member A"
                     /codon_start=1
                     /product="protein VCF1 isoform 2"
                     /protein_id="NP_613064.2"
                     /db_xref="CCDS:CCDS25600.2"
                     /db_xref="GeneID:28081"
                     /db_xref="MGI:MGI:106351"
                     /translation="MGRRGGDTGSGCGPGRPEGDSAPAATTRAAAVRAQTRAGGRGGR
                     RDTAPTVRCRRGAAPRRSPSPAAMSERLRPRKRRRNGSDDDNHPPPQTKRSSRNPIFQ
                     DSWDTESSSSDSGGSSSSSSINSPDRASGPESSLSHTIPGSCPSTPQPMPEQSALCQG
                     PYFHINQTLKEAHFHSLQHRGRPPT"
     exon            291..390
                     /gene="Vcf1"
                     /gene_synonym="D11Wsu99e; Fam104a"
                     /inference="alignment:Splign:2.1.0"
     exon            391..2615
                     /gene="Vcf1"
                     /gene_synonym="D11Wsu99e; Fam104a"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1009..1014
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Vcf1"
                     /gene_synonym="D11Wsu99e; Fam104a"
                     /note="hexamer: AATAAA"
     polyA_site      1027
                     /gene="Vcf1"
                     /gene_synonym="D11Wsu99e; Fam104a"
                     /note="major polyA site"
     regulatory      2587..2592
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Vcf1"
                     /gene_synonym="D11Wsu99e; Fam104a"
                     /note="hexamer: ATTAAA"
     polyA_site      2615
                     /gene="Vcf1"
                     /gene_synonym="D11Wsu99e; Fam104a"
ORIGIN      
        1 gggaaagcgc ggccggcgtc ccgcctccgc gcagccgcag gaggacagta ccacggcgcc
       61 tgcgacatgg ggaggcgcgg aggcgacacc ggaagtggct gtggtccggg tcggcccgag
      121 ggggactcag cgcccgcagc aaccacccgc gcggcggcgg tcagagctca gacccgtgcg
      181 ggtgggcgtg gcgggcgccg ggacacagct ccgactgttc gctgtcggcg cggggcggcg
      241 ccgcgtcgct cgccttcacc agctgccatg agcgagcgcc tccgccccag aaaaaggaga
      301 agaaatggca gtgatgatga caaccaccct cctccccaga ccaaaaggag cagtaggaac
      361 cccatcttcc aggactcctg ggacacagag tcttcaagca gcgacagtgg tgggagcagc
      421 agcagcagca gcatcaacag cccagacagg gccagtgggc cagagagcag cctgagccac
      481 accatccccg gatcctgccc cagcaccccc cagccgatgc ctgagcagtc tgcactatgc
      541 caaggccctt acttccacat caaccagacc ctgaaggagg ctcactttca tagcctacag
      601 caccgaggcc ggccgccgac atgatgctcc tccggcagtt tcttgccttc tgtgaaggga
      661 cagcactgtg cagattggat atttcaactt aatgatttgt ttttaaaagt tgcacacaga
      721 aaaaaaaaaa aaatgcctgt cggctttccg tctgtatttg agtgtgagtg ccgggtcagc
      781 aggtgctgct tactcggggt tttgctgcac tgttgcgatt tcggaggggc ttgggagcag
      841 ttttttagag gattctttta gaggattctt ttaagagagg gcatcagatc tacgtcgtgg
      901 cagtgtatga ggaagtctca tctgaccgat ttccacatct gtcaactaga tgctgtactg
      961 tatgtaaaga gcctcttaaa aatgcgggat cttaattttt tttaattcaa taaactagta
     1021 aagaatatct agtttccatg gggaaaaacc cctgtaagtt ttctccctaa atataggaag
     1081 cttgactctg ttgcactgaa gctaactgcc gtcctacctc ttagtatgta gatgtctgtc
     1141 tatgggatgc tctcccttgg aacagaacag ccgtccactc ggaagaccag ggacgttaag
     1201 cacatttcct agttgtggtc tttattttac atttgaattt ccagggagaa tatcacttcc
     1261 atatcttatt ttcttctagt ctgtacccca gacgctatag agaacattgc gcagtgctca
     1321 agtcaagaaa tagctagtaa atgttatgaa ctcgtatatt aacagcttaa ctgctagctc
     1381 cttgcggtgc ccatagccaa ggcagtggtc agtgcagacc aagtgcaggc tgcctgctaa
     1441 cacctagggc accccagccc tgccgggggc ccacattctg tcatggaact ggaaagattg
     1501 gtgtggtgta gaaacaggag cagaggcacc tctaggaaaa acaatgcgct agtatttatt
     1561 tagagagcct gggcattgtt cctatgctac ttggtcatac tagagagcca ggcaagcttg
     1621 aataatgaag gtgcaggtga gtcgtcttcc tcgcttgcaa gctgcctgaa taaggagcca
     1681 ggatgcgtcg tcgggtcacc tactctggag agtgccgggg ggccaacctg ccatatagat
     1741 aaagaggaag tgccttaagc gtgcacccat agcctcctgc ctgtcccctt cactgcaccc
     1801 cactcagagg ccacacagca caggcgacag cgctgaggag cggggatggc tctagtaaga
     1861 agggtctgag agggacgcct gggccagagc aggttactgt gtgatacagc gacagtctga
     1921 aggaggcccg tgccaggaag agaatgaaca tgcagtgcct tccatggccg cctctgaggg
     1981 ccacagcatg gaagggccag ccccgtgacg tgagaactac tgtcctgaag cccagagttc
     2041 acaacgtagg cttcttttcc tttcagaact gttttctgga ttttaaaagc ggatgtttgc
     2101 tgagggtact caggattact gagtttgttg gcaagggatg tggggaaggg tacttggctg
     2161 gaattggaac agtaaggcaa acagggctat gagaagagaa gctgtcaagc acacatggac
     2221 acaacacaat ccagaaatac ccaggagggc tccggcaggc ttaatgcacg gtgtcctact
     2281 gaaacaaaac atgtattaat aaaaccgtgc tggccgaagc acgtttctcc ccatctccca
     2341 cccaactaaa ggcacagggg agacatctga agacaaaggc tcttcccatg ctctgaccag
     2401 tgtcggggtg ccagtcaaca gtcattcgcc ctacaggata caagaggcca tctctatcgt
     2461 gtgctgtgcg gtctccacag cctgtggtct ggctctgggt atatttctat tttgaggcta
     2521 tttgctcaac tggcatcttt ctatgagctc cagctagtga aaccctgtac actctattgc
     2581 gccgccatta aaagcagcct tagtgcattg ccgtaaaaaa aaaaaaaaaa aaaaa
//
