LOCUS       NM_001411261            2953 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Mus musculus SIN3-HDAC complex associated factor (Sinhcaf),
            transcript variant 9, mRNA.
ACCESSION   NM_001411261
VERSION     NM_001411261.1
KEYWORDS    RefSeq.
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 2953)
  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 2953)
  AUTHORS   Bedogni,F. and Hevner,R.F.
  TITLE     Cell-Type-Specific Gene Expression in Developing Mouse Neocortex:
            Intermediate Progenitors Implicated in Axon Development
  JOURNAL   Front Mol Neurosci 14, 686034 (2021)
   PUBMED   34321999
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2953)
  AUTHORS   Nabeshima,R., Nishimura,O., Maeda,T., Shimizu,N., Ide,T.,
            Yashiro,K., Sakai,Y., Meno,C., Kadota,M., Shiratori,H., Kuraku,S.
            and Hamada,H.
  TITLE     Loss of Fam60a, a Sin3a subunit, results in embryonic lethality and
            is associated with aberrant methylation at a subset of gene
            promoters
  JOURNAL   Elife 7, e36435 (2018)
   PUBMED   30070635
  REMARK    GeneRIF: Our data suggest that Fam60a is required for proper
            embryogenesis, at least in part as a result of its regulation of
            DNA methylation at specific gene promoters.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2953)
  AUTHORS   Streubel,G., Fitzpatrick,D.J., Oliviero,G., Scelfo,A., Moran,B.,
            Das,S., Munawar,N., Watson,A., Wynne,K., Negri,G.L., Dillon,E.T.,
            Jammula,S., Hokamp,K., O'Connor,D.P., Pasini,D., Cagney,G. and
            Bracken,A.P.
  TITLE     Fam60a defines a variant Sin3a-Hdac complex in embryonic stem cells
            required for self-renewal
  JOURNAL   EMBO J 36 (15), 2216-2232 (2017)
   PUBMED   28554894
  REMARK    GeneRIF: Taken together, Fam60a is an essential core subunit of a
            variant Sin3a-Hdac complex in embryonic stem cells that is required
            to promote rapid proliferation and prevent unscheduled
            differentiation.
REFERENCE   5  (bases 1 to 2953)
  AUTHORS   Smith,K.T., Sardiu,M.E., Martin-Brown,S.A., Seidel,C.,
            Mushegian,A., Egidy,R., Florens,L., Washburn,M.P. and Workman,J.L.
  TITLE     Human family with sequence similarity 60 member A (FAM60A) protein:
            a new subunit of the Sin3 deacetylase complex
  JOURNAL   Mol Cell Proteomics 11 (12), 1815-1828 (2012)
   PUBMED   22984288
REFERENCE   6  (bases 1 to 2953)
  AUTHORS   Abramova,N., Charniga,C., Goderie,S.K. and Temple,S.
  TITLE     Stage-specific changes in gene expression in acutely isolated mouse
            CNS progenitor cells
  JOURNAL   Dev Biol 283 (2), 269-281 (2005)
   PUBMED   15890332
REFERENCE   7  (bases 1 to 2953)
  AUTHORS   Aubert,J., Dunstan,H., Chambers,I. and Smith,A.
  TITLE     Functional gene screening in embryonic stem cells implicates Wnt
            antagonism in neural differentiation
  JOURNAL   Nat Biotechnol 20 (12), 1240-1245 (2002)
   PUBMED   12447396
REFERENCE   8  (bases 1 to 2953)
  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   9  (bases 1 to 2953)
  AUTHORS   Phillips,R.L., Ernst,R.E., Brunk,B., Ivanova,N., Mahan,M.A.,
            Deanehan,J.K., Moore,K.A., Overton,G.C. and Lemischka,I.R.
  TITLE     The genetic program of hematopoietic stem cells
  JOURNAL   Science 288 (5471), 1635-1640 (2000)
   PUBMED   10834841
REFERENCE   10 (bases 1 to 2953)
  AUTHORS   Saijoh,Y., Fujii,H., Meno,C., Sato,M., Hirota,Y., Nagamatsu,S.,
            Ikeda,M. and Hamada,H.
  TITLE     Identification of putative downstream genes of Oct-3, a pluripotent
            cell-specific transcription factor
  JOURNAL   Genes Cells 1 (2), 239-252 (1996)
   PUBMED   9140067
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC140327.3.
            
            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 :: SRR17253014.4997416.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164140 [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-179               AC140327.3         87297-87475
            180-314             AC140327.3         91745-91879
            315-437             AC140327.3         91967-92089
            438-584             AC140327.3         100619-100765
            585-684             AC140327.3         103117-103216
            685-811             AC140327.3         105132-105258
            812-962             AC140327.3         107604-107754
            963-2953            AC140327.3         110737-112727
FEATURES             Location/Qualifiers
     source          1..2953
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="6"
                     /map="6 78.67 cM"
     gene            1..2953
                     /gene="Sinhcaf"
                     /gene_synonym="Fam60a; Ppcs1; Pptcs1; Tera"
                     /note="SIN3-HDAC complex associated factor"
                     /db_xref="GeneID:56306"
                     /db_xref="MGI:MGI:1929091"
     exon            1..179
                     /gene="Sinhcaf"
                     /gene_synonym="Fam60a; Ppcs1; Pptcs1; Tera"
                     /inference="alignment:Splign:2.1.0"
     exon            180..314
                     /gene="Sinhcaf"
                     /gene_synonym="Fam60a; Ppcs1; Pptcs1; Tera"
                     /inference="alignment:Splign:2.1.0"
     exon            315..437
                     /gene="Sinhcaf"
                     /gene_synonym="Fam60a; Ppcs1; Pptcs1; Tera"
                     /inference="alignment:Splign:2.1.0"
     exon            438..584
                     /gene="Sinhcaf"
                     /gene_synonym="Fam60a; Ppcs1; Pptcs1; Tera"
                     /inference="alignment:Splign:2.1.0"
     CDS             457..1122
                     /gene="Sinhcaf"
                     /gene_synonym="Fam60a; Ppcs1; Pptcs1; Tera"
                     /note="isoform 1 is encoded by transcript variant 9;
                     teratocarcinoma expressed, serine rich; pluripotent
                     cell-specific 1; protein FAM60A; family with sequence
                     similarity 60, member A"
                     /codon_start=1
                     /product="SIN3-HDAC complex-associated factor isoform 1"
                     /protein_id="NP_001398190.1"
                     /db_xref="GeneID:56306"
                     /db_xref="MGI:MGI:1929091"
                     /translation="MFGFHKPKMYRSIEGCCICRAKSSSSRFTDSKRYEKDFQSCFGL
                     HETRSGDICNACVLLVKRWKKLPAGSKKNWNHVVDARAGPSLKTTLKPKKVKTLSGNR
                     MKSNQISKLQKEFKRHNSDAHSTTSSASPAQSPCYSNQSDEGSDTEMASSSNRTPVFS
                     FLDLTYWKRQKICCGIIYKGRFGEVLIDTHLFKPCCSSKKAAAEKPEEQGPAPLPIST
                     QEW"
     exon            585..684
                     /gene="Sinhcaf"
                     /gene_synonym="Fam60a; Ppcs1; Pptcs1; Tera"
                     /inference="alignment:Splign:2.1.0"
     exon            685..811
                     /gene="Sinhcaf"
                     /gene_synonym="Fam60a; Ppcs1; Pptcs1; Tera"
                     /inference="alignment:Splign:2.1.0"
     exon            812..962
                     /gene="Sinhcaf"
                     /gene_synonym="Fam60a; Ppcs1; Pptcs1; Tera"
                     /inference="alignment:Splign:2.1.0"
     exon            963..2953
                     /gene="Sinhcaf"
                     /gene_synonym="Fam60a; Ppcs1; Pptcs1; Tera"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2930..2935
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Sinhcaf"
                     /gene_synonym="Fam60a; Ppcs1; Pptcs1; Tera"
                     /note="hexamer: AATAAA"
     polyA_site      2953
                     /gene="Sinhcaf"
                     /gene_synonym="Fam60a; Ppcs1; Pptcs1; Tera"
                     /note="major polyA site"
ORIGIN      
        1 aatttggtcc cgggagccgc gcctgcgcag agggaaagcg gaatctatac ctccgttcgc
       61 ggtagcaact gaagaactgc tggagacaat ctttctggac tcggcgctgg cggagggagt
      121 gcttgcagga ggttggcctg gtgcagtttg caccgtgggg acgctgctgc gcgtggaagg
      181 gttgaaaacg actgaaatgt gaaagtaagt ggctgctgtc ctcagggttg ggaagtggac
      241 atcttacaga agataacact gagacgaggg tcagttgctt tgcccagaga aacagtgaat
      301 gctgaatgaa aagaatctga ttcaaccatt ttacaccaaa aagtccggtg aagacctagt
      361 aaatgtcact gctttgttcc tggtttctct gcggtgccac cctggggtcc ctcacttttg
      421 agtccttgca gatttaactt tgaaccagaa gaaaagatgt ttggttttca caagccaaag
      481 atgtaccgaa gtatagaggg ctgctgtata tgcagagcca agtcctccag ctcccggttc
      541 acggacagta aacgttacga aaaggacttc cagagctgtt ttgggttgca tgagactcgc
      601 tcaggagaca tctgtaatgc ctgtgtgctg cttgtgaaaa gatggaagaa gttgccggca
      661 ggatcaaaaa aaaactggaa tcacgtggta gatgcaagag caggccctag tctaaagaca
      721 acattgaaac caaagaaagt gaaaactcta tctggaaaca ggatgaaaag caaccagatc
      781 agcaaactgc agaaggaatt taaacgccac aactctgatg ctcacagtac cacctcaagt
      841 gcctctccag cccagtctcc atgctacagt aaccagtcag atgagggctc agatacagag
      901 atggcttcca gctctaatag aactccggtt ttttccttct tagatcttac ctactggaaa
      961 agacagaaaa tatgttgtgg gatcatctat aaaggccgtt ttggggaagt cctcatcgac
     1021 actcatctct tcaagccttg ctgcagcagt aagaaagcag ctgccgagaa gcccgaggag
     1081 caggggccgg cacctctgcc catctccact caggagtggt gactgaggtt catttagaag
     1141 ggagcaaaga gcgttttaaa ctttgaaaag accacaaaac aaactgaccc tcctattttt
     1201 aacttggata cctgctattc tgccaaaaga cattttctag aatagttttt aatgggttac
     1261 tgtccttacc cttcatccaa caaactctga agccagtctc tagcttactg caagaaaaag
     1321 aagtgtacat aatatttaag atgctgagta tttcatagga aagctgaatg ctgctgtaaa
     1381 gtgctcttta agtctttttt tttttttttt tttaaatccc ctctaatgaa tggaattagg
     1441 ggaatttcag gggacagaga tgggatttgt tgtgtgataa accatatgta gtttagtctt
     1501 tctgtggaga ggcagtggtt ggggcatttt taaatggctg gctacacttg ttttccctca
     1561 tgataatttg tcataactca gtagcatgac ctgcccctag aaggtagtta aaatttgtaa
     1621 atgctaaggc gttgccaggt cctaatgagt cagacctgta ctactgatta ttaagcagga
     1681 cagactgagc tttctgcaaa tagcttgaag gaggaaacaa tttctgaaca cacaagtagc
     1741 accgtgtcgc ctccctttat cttcatattg ataaaagact ttatgtggat cttgtaaaac
     1801 agaaccagat ctccttctgg ggaaggcctt gcctctagga tgggcaaggt tgactaggga
     1861 tagtcccaaa gcatgaccac aaagtagaga gcacgtggtt agaaaccact tcatcagaat
     1921 gtgtgagtcc tggggatgca tggggcacag ttgatgctgc ttgggacacg tttcttagag
     1981 ggcttacagt atgtaaataa ttgacattgg tgttaacacg actgtcgggg attcactgaa
     2041 atccacatga ttcagttcta gctctggatt acctcagttg acctttgtgg aggttttatc
     2101 tatagagtag ttcttgcctt gtcatagacc ttattagggt ttggggtttt gttccttcgt
     2161 tgttttcctc tcactattta aagttgacta gaagagaaga gttgtgtgtt gaggctaagt
     2221 tggtgggttg ggttggcttc ttaacatcaa gaaactgaat ggagctccac acctctagat
     2281 ctcaatgatt cggttggctt ctcagtggaa cccaactgaa gttgtctaat tgcctcttct
     2341 cagagttcag gaaaaacagt agtgccactt gagacctcgt agaggaggta tacgtggctg
     2401 ccttagtatt ctgttcctca tgattatttt agaaactgga ttttaaaaag tcttttagag
     2461 tttcacaaca aggagaagcc acagtttgtg gcatcctata gttttacatt gtgtatttct
     2521 tccttttagg aaaaacctac ctagtacaag ctaccacgtg cacagacagc ccaatgagtg
     2581 ggccatttct ccacaaccct ggtgtaatac agagtccagc cattaccatt ctcctgcgtt
     2641 actttgacat gggatttttt tttttttttg tacattttgg ctgcagtatt ggtggtagaa
     2701 tatactttga tggatcatct ctacttctgt atttatttat ttattactag acctcaacca
     2761 cagccttctc cccctccact ctctgcctgt aggatgtact gtatgtagtc atgcactttg
     2821 tattaatata ttagaaatct acagatctgt tttgtacttt ttatactgtt ggatacttat
     2881 aatcaaaact ttactctagg gtattgaata aatttagtct tattagaaaa ataaaagttg
     2941 tctcatgact ttg
//
