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    Chd4 chromodomain helicase DNA binding protein 4 [ Mus musculus (house mouse) ]

    Gene ID: 107932, updated on 9-Jul-2017
    Official Symbol
    Chd4provided by MGI
    Official Full Name
    chromodomain helicase DNA binding protein 4provided by MGI
    Primary source
    MGI:MGI:1344380
    See related
    Ensembl:ENSMUSG00000063870 Vega:OTTMUSG00000023920
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    AA617397; BC005710; Mi-2beta; mKIAA4075; D6Ertd380e; 9530019N15Rik
    Orthologs
    Location:
    6 F2; 6 59.28 cM
    Exon count:
    38
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 6 NC_000072.6 (125095986..125130591)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 6 NC_000072.5 (125046181..125080532)

    Chromosome 6 - NC_000072.6Genomic Context describing neighboring genes Neighboring gene proacrosin binding protein Neighboring gene lysophosphatidic acid receptor 5 Neighboring gene predicted gene, 32616 Neighboring gene microRNA 7045 Neighboring gene NOP2 nucleolar protein Neighboring gene intermediate filament family orphan 1 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Clone Names

    • KIAA4075, MGC11769

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    contributes_to RNA polymerase II core promoter proximal region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    contributes_to RNA polymerase II distal enhancer sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    RNA polymerase II repressing transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
     
    helicase activity IEA
    Inferred from Electronic Annotation
    more info
     
    histone deacetylase binding ISO
    Inferred from Sequence Orthology
    more info
     
    hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
     
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    microtubule binding IEA
    Inferred from Electronic Annotation
    more info
     
    contributes_to nucleosomal DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    transcription factor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    ATP-dependent chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
     
    chromatin organization IEA
    Inferred from Electronic Annotation
    more info
     
    covalent chromatin modification IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of transcription from RNA polymerase II promoter ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of transcription, DNA-templated IEA
    Inferred from Electronic Annotation
    more info
     
    spindle assembly IEA
    Inferred from Electronic Annotation
    more info
     
    terminal button organization ISO
    Inferred from Sequence Orthology
    more info
     
    transcription, DNA-templated IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    NuRD complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    NuRD complex ISO
    Inferred from Sequence Orthology
    more info
     
    centrosome ISO
    Inferred from Sequence Orthology
    more info
     
    cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
     
    membrane ISO
    Inferred from Sequence Orthology
    more info
     
    nuclear chromatin ISO
    Inferred from Sequence Orthology
    more info
     
    nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    protein complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein complex ISO
    Inferred from Sequence Orthology
    more info
     
    protein-DNA complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Preferred Names
    chromodomain-helicase-DNA-binding protein 4
    Names
    CHD-4
    Mi-2 beta
    NP_666091.1
    XP_006505343.1
    XP_006505344.1
    XP_006505345.1
    XP_006505346.1
    XP_006505347.1
    XP_006505348.1
    XP_006505349.1
    XP_006505350.1
    XP_017176781.1
    XP_017176783.1
    XP_017176784.1
    XP_017176785.1

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001346610.1NP_001333539.1  chromodomain-helicase-DNA-binding protein 4

      Status: VALIDATED

      Source sequence(s)
      AC134529, AI844224, AK034549, AK145532, AK147695, CN527871, CX565499, DV661376
      UniProtKB/Swiss-Prot
      Q6PDQ2
      UniProtKB/TrEMBL
      Q3ULG0, Q8BM83
    2. NM_145979.2NP_666091.1  chromodomain-helicase-DNA-binding protein 4

      See identical proteins and their annotated locations for NP_666091.1

      Status: VALIDATED

      Source sequence(s)
      AC134529, AC166162
      Consensus CDS
      CCDS20543.1
      UniProtKB/Swiss-Prot
      Q6PDQ2
      Related
      ENSMUSP00000060054.8, OTTMUSP00000028311, ENSMUST00000056889.14, OTTMUST00000058439
      Conserved Domains (11) summary
      smart00298
      Location:615669
      CHROMO; Chromatin organization modifier domain
      cd00024
      Location:533570
      CHROMO; Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence ...
      cd00046
      Location:739897
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      cd15531
      Location:365407
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:444486
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam00176
      Location:7221018
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:10611157
      Helicase_C; Helicase conserved C-terminal domain
      pfam06461
      Location:13781514
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:12951345
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:157209
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:17291899
      CHDCT2; CHDCT2 (NUC038) domain

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000072.6 Reference GRCm38.p4 C57BL/6J

      Range
      125095986..125130591
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006505280.1XP_006505343.1  chromodomain-helicase-DNA-binding protein 4 isoform X1

      Conserved Domains (11) summary
      smart00298
      Location:622676
      CHROMO; Chromatin organization modifier domain
      cd00024
      Location:540577
      CHROMO; Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence ...
      cd00046
      Location:746904
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      cd15531
      Location:372414
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:451493
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam00176
      Location:7291025
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:10681164
      Helicase_C; Helicase conserved C-terminal domain
      pfam06461
      Location:14131549
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:13021352
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:164216
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:17641935
      CHDCT2; CHDCT2 (NUC038) domain
    2. XM_006505281.1XP_006505344.1  chromodomain-helicase-DNA-binding protein 4 isoform X2

      Conserved Domains (11) summary
      smart00298
      Location:622676
      CHROMO; Chromatin organization modifier domain
      cd00024
      Location:540577
      CHROMO; Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence ...
      cd00046
      Location:746904
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      cd15531
      Location:372414
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:451493
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam00176
      Location:7291025
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:10681164
      Helicase_C; Helicase conserved C-terminal domain
      pfam06461
      Location:14131549
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:13021352
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:164216
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:17641934
      CHDCT2; CHDCT2 (NUC038) domain
    3. XM_006505285.1XP_006505348.1  chromodomain-helicase-DNA-binding protein 4 isoform X7

      Conserved Domains (11) summary
      smart00298
      Location:622676
      CHROMO; Chromatin organization modifier domain
      cd00024
      Location:540577
      CHROMO; Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence ...
      cd00046
      Location:746904
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      cd15531
      Location:372414
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:451493
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam00176
      Location:7291025
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:10681164
      Helicase_C; Helicase conserved C-terminal domain
      pfam06461
      Location:13851521
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:13021352
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:164216
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:17361907
      CHDCT2; CHDCT2 (NUC038) domain
    4. XM_006505286.1XP_006505349.1  chromodomain-helicase-DNA-binding protein 4 isoform X8

      UniProtKB/TrEMBL
      E9QAS5
      Related
      ENSMUSP00000108009.1, OTTMUSP00000028313, ENSMUST00000112390.7, OTTMUST00000058441
      Conserved Domains (11) summary
      smart00298
      Location:622676
      CHROMO; Chromatin organization modifier domain
      cd00024
      Location:540577
      CHROMO; Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence ...
      cd00046
      Location:746904
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      cd15531
      Location:372414
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:451493
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam00176
      Location:7291025
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:10681164
      Helicase_C; Helicase conserved C-terminal domain
      pfam06461
      Location:13851521
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:13021352
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:164216
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:17361906
      CHDCT2; CHDCT2 (NUC038) domain
    5. XM_017321292.1XP_017176781.1  chromodomain-helicase-DNA-binding protein 4 isoform X3

    6. XM_006505287.1XP_006505350.1  chromodomain-helicase-DNA-binding protein 4 isoform X9

      Conserved Domains (11) summary
      smart00298
      Location:622676
      CHROMO; Chromatin organization modifier domain
      cd00024
      Location:540577
      CHROMO; Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence ...
      cd00046
      Location:746904
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      cd15531
      Location:372414
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:451493
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam00176
      Location:7291025
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:10681164
      Helicase_C; Helicase conserved C-terminal domain
      pfam06461
      Location:13841520
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:13011351
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:164216
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:17351906
      CHDCT2; CHDCT2 (NUC038) domain
    7. XM_017321294.1XP_017176783.1  chromodomain-helicase-DNA-binding protein 4 isoform X10

    8. XM_006505283.1XP_006505346.1  chromodomain-helicase-DNA-binding protein 4 isoform X5

      Conserved Domains (11) summary
      smart00298
      Location:609663
      CHROMO; Chromatin organization modifier domain
      cd00024
      Location:527564
      CHROMO; Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence ...
      cd00046
      Location:733891
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      cd15531
      Location:359401
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:438480
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam00176
      Location:7161012
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:10551151
      Helicase_C; Helicase conserved C-terminal domain
      pfam06461
      Location:14001536
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:12891339
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:164216
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:17511922
      CHDCT2; CHDCT2 (NUC038) domain
    9. XM_006505282.1XP_006505345.1  chromodomain-helicase-DNA-binding protein 4 isoform X4

      Conserved Domains (11) summary
      smart00298
      Location:615669
      CHROMO; Chromatin organization modifier domain
      cd00024
      Location:533570
      CHROMO; Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence ...
      cd00046
      Location:739897
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      cd15531
      Location:365407
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:444486
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam00176
      Location:7221018
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:10611157
      Helicase_C; Helicase conserved C-terminal domain
      pfam06461
      Location:14061542
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:12951345
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:157209
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:17571928
      CHDCT2; CHDCT2 (NUC038) domain
    10. XM_017321295.1XP_017176784.1  chromodomain-helicase-DNA-binding protein 4 isoform X11

    11. XM_006505284.1XP_006505347.1  chromodomain-helicase-DNA-binding protein 4 isoform X6

      Conserved Domains (11) summary
      smart00298
      Location:602656
      CHROMO; Chromatin organization modifier domain
      cd00024
      Location:520557
      CHROMO; Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence ...
      cd00046
      Location:726884
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      cd15531
      Location:352394
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:431473
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam00176
      Location:7091005
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:10481144
      Helicase_C; Helicase conserved C-terminal domain
      pfam06461
      Location:13931529
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:12821332
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:157209
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:17441915
      CHDCT2; CHDCT2 (NUC038) domain
    12. XM_017321296.1XP_017176785.1  chromodomain-helicase-DNA-binding protein 4 isoform X12

      UniProtKB/TrEMBL
      E9QAS4
      Related
      ENSMUSP00000108011.1, OTTMUSP00000028312, ENSMUST00000112392.7, OTTMUST00000058440
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