LOCUS       NM_001281453            5678 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens methyl-CpG binding domain protein 3 (MBD3), transcript
            variant 1, mRNA.
ACCESSION   NM_001281453
VERSION     NM_001281453.2
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 5678)
  AUTHORS   Leighton,G.O., Irvin,E.M., Kaur,P., Liu,M., You,C., Bhattaram,D.,
            Piehler,J., Riehn,R., Wang,H., Pan,H. and Williams,D.C. Jr.
  TITLE     Densely methylated DNA traps Methyl-CpG-binding domain protein 2
            but permits free diffusion by Methyl-CpG-binding domain protein 3
  JOURNAL   J Biol Chem 298 (10), 102428 (2022)
   PUBMED   36037972
  REMARK    GeneRIF: Densely methylated DNA traps Methyl-CpG-binding domain
            protein 2 but permits free diffusion by Methyl-CpG-binding domain
            protein 3.
REFERENCE   2  (bases 1 to 5678)
  AUTHORS   Yan,W., Han,Q., Gong,L., Zhan,X., Li,W., Guo,Z., Zhao,J., Li,T.,
            Bai,Z., Wu,J., Huang,Y., Lv,L., Zhao,H., Cai,H., Huang,S., Diao,X.,
            Chen,Y., Gong,W., Xia,Q., Man,J., Chen,L., Dai,G. and Zhou,T.
  TITLE     MBD3 promotes hepatocellular carcinoma progression and metastasis
            through negative regulation of tumour suppressor TFPI2
  JOURNAL   Br J Cancer 127 (4), 612-623 (2022)
   PUBMED   35501390
  REMARK    GeneRIF: MBD3 promotes hepatocellular carcinoma progression and
            metastasis through negative regulation of tumour suppressor TFPI2.
REFERENCE   3  (bases 1 to 5678)
  AUTHORS   Cho,N.H., Cheveralls,K.C., Brunner,A.D., Kim,K., Michaelis,A.C.,
            Raghavan,P., Kobayashi,H., Savy,L., Li,J.Y., Canaj,H., Kim,J.Y.S.,
            Stewart,E.M., Gnann,C., McCarthy,F., Cabrera,J.P., Brunetti,R.M.,
            Chhun,B.B., Dingle,G., Hein,M.Y., Huang,B., Mehta,S.B.,
            Weissman,J.S., Gomez-Sjoberg,R., Itzhak,D.N., Royer,L.A., Mann,M.
            and Leonetti,M.D.
  TITLE     OpenCell: Endogenous tagging for the cartography of human cellular
            organization
  JOURNAL   Science 375 (6585), eabi6983 (2022)
   PUBMED   35271311
REFERENCE   4  (bases 1 to 5678)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   5  (bases 1 to 5678)
  AUTHORS   Spruijt,C.G., Grawe,C., Kleinendorst,S.C., Baltissen,M.P.A. and
            Vermeulen,M.
  TITLE     Cross-linking mass spectrometry reveals the structural topology of
            peripheral NuRD subunits relative to the core complex
  JOURNAL   FEBS J 288 (10), 3231-3245 (2021)
   PUBMED   33283408
REFERENCE   6  (bases 1 to 5678)
  AUTHORS   Hendrich,B., Abbott,C., McQueen,H., Chambers,D., Cross,S. and
            Bird,A.
  TITLE     Genomic structure and chromosomal mapping of the murine and human
            Mbd1, Mbd2, Mbd3, and Mbd4 genes
  JOURNAL   Mamm Genome 10 (9), 906-912 (1999)
   PUBMED   10441743
REFERENCE   7  (bases 1 to 5678)
  AUTHORS   Hendrich,B. and Bird,A.
  TITLE     Identification and characterization of a family of mammalian
            methyl-CpG binding proteins
  JOURNAL   Mol Cell Biol 18 (11), 6538-6547 (1998)
   PUBMED   9774669
REFERENCE   8  (bases 1 to 5678)
  AUTHORS   Tong,J.K., Hassig,C.A., Schnitzler,G.R., Kingston,R.E. and
            Schreiber,S.L.
  TITLE     Chromatin deacetylation by an ATP-dependent nucleosome remodelling
            complex
  JOURNAL   Nature 395 (6705), 917-921 (1998)
   PUBMED   9804427
REFERENCE   9  (bases 1 to 5678)
  AUTHORS   Zhang,Y., LeRoy,G., Seelig,H.P., Lane,W.S. and Reinberg,D.
  TITLE     The dermatomyositis-specific autoantigen Mi2 is a component of a
            complex containing histone deacetylase and nucleosome remodeling
            activities
  JOURNAL   Cell 95 (2), 279-289 (1998)
   PUBMED   9790534
REFERENCE   10 (bases 1 to 5678)
  AUTHORS   Abbott,W.M., Mellor,A., Edwards,Y. and Feizi,T.
  TITLE     Soluble bovine galactose-binding lectin. cDNA cloning reveals the
            complete amino acid sequence and an antigenic relationship with the
            major encephalitogenic domain of myelin basic protein
  JOURNAL   Biochem J 259 (1), 283-290 (1989)
   PUBMED   2470348
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC005943.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 22, 2018 this sequence version replaced NM_001281453.1.
            
            Summary: DNA methylation is the major modification of eukaryotic
            genomes and plays an essential role in mammalian development. This
            gene belongs to a family of nuclear proteins which are
            characterized by the presence of a methyl-CpG binding domain (MBD).
            The encoded protein is a subunit of the NuRD, a multisubunit
            complex containing nucleosome remodeling and histone deacetylase
            activities. Unlike the other family members, the encoded protein is
            not capable of binding to methylated DNA. The protein mediates the
            association of metastasis-associated protein 2 with the core
            histone deacetylase complex. Alternative splicing results in
            multiple transcript variants of this gene. [provided by RefSeq, Jul
            2013].
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (1).
            
            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 :: SRR18074969.1880464.1, AF072247.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000434436.8/ ENSP00000412302.2
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-344               AC005943.1         33152-33495         c
            345-504             AC005943.1         25685-25844         c
            505-642             AC005943.1         25170-25307         c
            643-733             AC005943.1         23252-23342         c
            734-911             AC005943.1         21722-21899         c
            912-1115            AC005943.1         18965-19168         c
            1116-5678           AC005943.1         14226-18788         c
FEATURES             Location/Qualifiers
     source          1..5678
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="19"
                     /map="19p13.3"
     gene            1..5678
                     /gene="MBD3"
                     /note="methyl-CpG binding domain protein 3"
                     /db_xref="GeneID:53615"
                     /db_xref="HGNC:HGNC:6918"
                     /db_xref="MIM:603573"
     exon            1..344
                     /gene="MBD3"
                     /inference="alignment:Splign:2.1.0"
     CDS             235..1110
                     /gene="MBD3"
                     /note="isoform 1 is encoded by transcript variant 1"
                     /codon_start=1
                     /product="methyl-CpG-binding domain protein 3 isoform 1"
                     /protein_id="NP_001268382.1"
                     /db_xref="CCDS:CCDS12072.1"
                     /db_xref="GeneID:53615"
                     /db_xref="HGNC:HGNC:6918"
                     /db_xref="MIM:603573"
                     /translation="MERKRWECPALPQGWEREEVPRRSGLSAGHRDVFYYSPSGKKFR
                     SKPQLARYLGGSMDLSTFDFRTGKMLMSKMNKSRQRVRYDSSNQVKGKPDLNTALPVR
                     QTASIFKQPVTKITNHPSNKVKSDPQKAVDQPRQLFWEKKLSGLNAFDIAEELVKTMD
                     LPKGLQGVGPGCTDETLLSAIASALHTSTMPITGQLSAAVEKNPGVWLNTTQPLCKAF
                     MVTDEDIRKQEELVQQVRKRLEEALMADMLAHVEELARDGEAPLDKACAEDDDEEDEE
                     EEEEEPDPDPEMEHV"
     exon            345..504
                     /gene="MBD3"
                     /inference="alignment:Splign:2.1.0"
     exon            505..642
                     /gene="MBD3"
                     /inference="alignment:Splign:2.1.0"
     exon            643..733
                     /gene="MBD3"
                     /inference="alignment:Splign:2.1.0"
     exon            734..911
                     /gene="MBD3"
                     /inference="alignment:Splign:2.1.0"
     exon            912..1115
                     /gene="MBD3"
                     /inference="alignment:Splign:2.1.0"
     exon            1116..5678
                     /gene="MBD3"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2566..2571
                     /regulatory_class="polyA_signal_sequence"
                     /gene="MBD3"
                     /note="hexamer: AATAAA"
     polyA_site      2596
                     /gene="MBD3"
                     /note="major polyA site"
     regulatory      5657..5662
                     /regulatory_class="polyA_signal_sequence"
                     /gene="MBD3"
                     /note="hexamer: AATAAA"
     polyA_site      5678
                     /gene="MBD3"
ORIGIN      
        1 gggtgggcgg agcgggcccc ccgagcgggg gctggcgagc gcggggaggg ggccgaaagg
       61 gcggcaaagc cggcgcgcgc ccggctgggg gcggagggcg ggggcccgcg ggccggaaca
      121 gccgcggcaa gtggcggcgg cggcagcggc agcggaggca gctgaggcgg cggcggcgag
      181 tgggggtccg ggcggcggcg gcgggcccgg cggcgggccg aggagccggg cgcaatggag
      241 cggaagaggt gggagtgccc ggcgctcccg cagggctggg agagggaaga agtgcccaga
      301 aggtcggggc tgtcggccgg ccacagggat gtcttttact atagcccgag cgggaagaag
      361 ttccgcagca agccgcagct ggcgcgctac ctgggcggct ccatggacct gagcaccttc
      421 gacttccgca cgggcaagat gctgatgagc aagatgaaca agagccgcca gcgcgtgcgc
      481 tacgactcct ccaaccaggt caagggcaag cccgacctga acacggcgct gcccgtgcgc
      541 cagacggcgt ccatcttcaa gcagccggtg accaagatta ccaaccaccc cagcaacaag
      601 gtcaagagcg acccgcagaa ggcggtggac cagccgcgcc agctcttctg ggagaagaag
      661 ctgagcggcc tgaacgcctt cgacattgct gaggagctgg tcaagaccat ggacctcccc
      721 aagggcctgc agggggtggg acctggctgc acggatgaga cgctgctgtc ggccatcgcc
      781 agcgccctgc acactagcac catgcccatc acgggacagc tctcggccgc cgtggagaag
      841 aaccccggcg tatggctcaa caccacgcag cccctgtgca aagccttcat ggtgaccgac
      901 gaggacatca ggaagcagga agagctggtg cagcaggtgc ggaagcggct ggaggaggcg
      961 ctgatggccg acatgctggc gcacgtggag gagctggccc gtgacgggga ggcgccgctg
     1021 gacaaggcct gcgctgagga cgacgacgag gaagacgagg aggaggagga ggaggagccc
     1081 gacccggacc cggagatgga gcacgtctag ggcagaggcc ctgccgagag cccgtgctgc
     1141 ctgctggagc cgcctgcaga cgcggtcctc ggccccacgt gaaccaggct cggcggcgaa
     1201 gcccagcctt ggagacaccc aggaggaagg ccgtgctcct ggctccctcc tcggcccgtc
     1261 cccacttccc ggggcctcgg ggcacacagc tggggctgcc cccacccgaa agaccctcca
     1321 cgctcgtcct ctacagagtc cggcttcggg aagtgccggg tgctcctggg ccctgcctgg
     1381 ctccctacga cctttgggct cgaggccagc tcctccccat gcccgctgtc ccagctcctt
     1441 gagactggag agcagccagc aggtgcccgg cagctcggcg ccacggcttg ctgacagctg
     1501 ggagggtttc tcggtctgga ggcgtagttt tgaaactcac atcacccact gtgcagcgtg
     1561 aggacgggac tctggtctgc tgtggggggc atgcaggacg gcgccactct ctgccctgcc
     1621 atgcggctgg tggtgccaca gagcctcacc gtgcctgagt ggcatgccca ggaggccgct
     1681 ctccttcagt aaatgtaaca cagtcgaggc acgtcatcgg gcagccttcc ctgtgtgcca
     1741 acgccagcct tcgcttctga aaaccaaact ccagccgctg ccagtcggga cttggtcgcc
     1801 cggcgctgcc agaatgctcc actgccagcc ggcccccctg cctcggtttc ccttctgttt
     1861 agtggcgaca caggcaccca gctttggggt ggtgctgacg ctcccagggg tgccaggagc
     1921 cactgggaca gggtgaggct cccagacgct cctcgaggtg cccagctctc cagggagctt
     1981 ctggcccaag gccgtctgag ggatctgctc cttaaccccc cagtgccttg gcgagggcag
     2041 gttccaagcc acagacgcct gccccgagtg gactctgcgg ccagtccctg gtgccctcct
     2101 ggccctgctg cccagtgagg gctcctacgg gtgggttcat tggcctgggc ccagcgagcc
     2161 cccacctgca ttgaccttag gcccatagag agggcctgtc ccggtgctgc cccagccagg
     2221 atctggtcgc tgccccaggg ggactgatgg gcagagtcgc ccctgtggct ggactgtgac
     2281 catccctgat ggggcctgac cgcgggagct gaggaagcgc cgctccaccg tctgccctcc
     2341 aaggacccgc atggaggcag tgggctggca gcttcctgct gctccctgtc agagtcaaag
     2401 cacaaatcct caggacgggc tcaagggcca gggcagccga gggaagctcc aggtggggac
     2461 cacgtcttcc tgaggttggt gcccactggc tgggaccctt tgcagtgggg tggcctcccc
     2521 tctgtctgcc tggtggaggg agccgtgggc gtggggacgt gactgaataa agccaccatg
     2581 ggtggatgtg cttggagcct ggagttcggt gcgtccgcta gactttggtg cccacgtttg
     2641 agcttctgtc tttggttggg tgatgaaagg ctgaaagcgg tgtggggaca gggccagcag
     2701 gtcccccaac ctcgcggaca ttcacaaccc aagagtcagg cttaggggta ttcagagaag
     2761 accaggccgg cctgggcatc tgtgggcaag ggccgtgccc cctgaggtgc cgctggctca
     2821 gcctagggat cgtgggtctt ggccctgctg ccccggtgag gaagatgggc tggggctcag
     2881 acccagcacc gctccttcca aaggaaggga agcaggaggg gctgcctggc agggagggcc
     2941 ccccaggtcc tcaggtcctg cacagccgct gcagggaggg gagctgtgcc ccgggaccct
     3001 ggacttcagc tcactagcca tggccactgg aagctgcttt ctggacctga aggctgggag
     3061 gccaccctcc cctcatctgc ccggcactca gagacactct gtttccctct tcccatctcc
     3121 cactgtgtcc ctgtctccct tggtctctct ctgtctctgt ctatccctgt ctctatctct
     3181 ccctcttgtc tctctcttgc gccgtctccc tctctgtccc tctttgtttc ttgctctctc
     3241 tcctgtctct ctccctcggt ctctgtctct gtctcttgct gtctctccct ctctgtcgca
     3301 gcccagcttc ctgtcactga cagaccccga tcagtccctc tgatcccggg gttctggcca
     3361 tgtcctggcc ttggtctgag atgtgatgat ccctacccct gccacagggc cctccccact
     3421 ggaagcccat ccaggccctg ggctgtcgct gttgacgaag cttgagggtc ctttcctctc
     3481 tccctgaaac cttggggacc cccacaggcc aaggcaatac tggcctttgc tagaggtcgt
     3541 gcccggtgag aagtgagttg taggcgtggg cacctgaggg gccagcccag tgctcaggcc
     3601 ctcgtcaaat tccctgccct ggaaaagtct cagaccctca ggctgaaccc cctgggcgca
     3661 ccgaggctcc acactccagc cccagaaccc agacctggca tggggcgggg aagcctgagc
     3721 tcccaatgct gggatctttc gtgggggcct catgaccagc ctgccctgtg cggtgcctgg
     3781 ccccatcctc aaaggccact tggctgcccc cagccccgcc catgtctcag ccccaagacc
     3841 ttctgggact tttttttttt ttagacaaga gtttcgctct tctttcgctc ttgttgcaca
     3901 ggctggagtg cagtggcgtg atctgggctc actgcaacct ccaccttctg ggttcaagcc
     3961 tcagcctccc gagtagccac cacgcccagc taatttttgt atttttaata gagacagggt
     4021 ttcaccatgt tggccagtct ggtctggaac tcctaacctc aggtgatccg cccgccccag
     4081 cttcccaaat tgccgggatt acaggtgtga accaccatgg cagcccttct ggcacttgcc
     4141 agcagcagca agagcctcac gtgtcccccg cctcccctca gaccaagctc cccaccgctg
     4201 ccgccacaga gggtaccagg gaggagaggc tcaggacccc cgtggcgagg atgcacctcc
     4261 cagccctcgg cccagccaca cggaccacag ggctcccgag tctcagcaac accagctaag
     4321 gggcatcatg cctctcctgc cacacccagg gcccgtgcct tgctgtccct gcagccccca
     4381 gacccaggca gacagggaca gcccttctga ccaccgcaca cactcgccac cgcaaagatc
     4441 cccggggatg cccctcgcct gtgtgtgtcc ctcatggctg tcacagcaaa tctccaggag
     4501 cccggaggtg cccatggaaa acacccccag cttccggaac gttctttcgg acagggccat
     4561 accggagcaa gactcagctt tctggtagcg ggtggctggg cactgcctgt gagattctgt
     4621 cacactcgct ccagattcaa ggggtccaaa aagtgtaaac aagtcaagtg cccatccagg
     4681 gatgaacgaa cacagcccgg cccggccaca ccatggagca ggactcggcc atgaacagga
     4741 accaggctct gacaccggcc acggcgcaga tgcccctgga ggagtccacc ctcagcaaga
     4801 gacacacaga caccgacacg gcgtgcaatc ccatttgtgt gaatgtccag gacaggccga
     4861 ttcagagaca ggaaggggac acgtgggtgc cagtgactgg ggattatggg gactggggga
     4921 aatggctaaa gggcacccac aaaagttaat gataatgttc cacagttttt tttttgagat
     4981 ggagtctcac tcttgtcacc caggctggag tgcaatggtg tgatctctgc tcactgcaag
     5041 ctctgcctcc tgggttcacg ccattctccc tcctcagcct cccaagtagc tgagattaca
     5101 ggcatatgcc accaccccca gtagagacgg ggtttcacca tgttagccag gctggtcacg
     5161 aactcctgac ctcaagtgat cccccacctc ggcctcccaa agtgctggga ttacaggcat
     5221 gagccaccgt gcctcaccag aattgtgtac ttttttttct tcttcttctt cggcatggag
     5281 tttcgctctt gttgcccagg ctggagtgca atggtgcaaa cttggctcac cgcaacctcc
     5341 tcctcccggg ttcaatagat tctccagcct cagcctgctg agtagctgag attacgggcg
     5401 cccgccacca cacccagcta atctttgtac ttttagtaga gacagggttt caccatgttg
     5461 gccacgggca aaagaatttt gttgagggca aataatatga gaccacaaaa ctgccttccc
     5521 tgctcagttt taattttcac agttttaatt tttagccttc tctggttacc aaaataacca
     5581 cgctcacggc cgttcatttg aagatatttc cagttaacgt gtgtgaagtg ggttttttga
     5641 gatgtaattt acaagcaata aaatgctcct gtctctgc
//
