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    CHD3 chromodomain helicase DNA binding protein 3 [ Sus scrofa (pig) ]

    Gene ID: 100188906, updated on 17-Aug-2024

    Summary

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    Official Symbol
    CHD3provided by VGNC
    Official Full Name
    chromodomain helicase DNA binding protein 3provided by VGNC
    Primary source
    VGNC:VGNC:86631
    See related
    Ensembl:ENSSSCG00000021363
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Sus scrofa
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
    Expression
    Ubiquitous expression in lung (RPKM 31.9), kidney (RPKM 30.4) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See CHD3 in Genome Data Viewer
    Location:
    chromosome: 12
    Exon count:
    44
    Annotation release Status Assembly Chr Location
    106 current Sscrofa11.1 (GCF_000003025.6) 12 NC_010454.4 (53135767..53163244)
    105 previous assembly Sscrofa10.2 (GCF_000003025.5) 12 NC_010454.3 (55505273..55529558)

    Chromosome 12 - NC_010454.4Genomic Context describing neighboring genes Neighboring gene N-alpha-acetyltransferase 38, NatC auxiliary subunit Neighboring gene uncharacterized LOC102158553 Neighboring gene inhibin subunit beta A Neighboring gene uncharacterized LOC100525078 Neighboring gene ring finger protein 227 Neighboring gene potassium voltage-gated channel subfamily A regulatory beta subunit 3

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome data used for gene annotation Transcriptome data used for gene annotation
    • Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
    • BioProject: PRJNA311523
    • Publication: PMID 27646534
    • Analysis date: Thu Dec 14 17:10:49 2017

    Bibliography

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    Related articles in PubMed

    1. Manipulation of SMARCA2 and SMARCA4 transcript levels in porcine embryos differentially alters development and expression of SMARCA1, SOX2, NANOG, and EIF1. Magnani L, et al. Reproduction, 2009 Jan. PMID 18845624

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables ATP-dependent chromatin remodeler activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables chromatin binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables histone binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in negative regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of NuRD complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of chromatin IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    chromodomain-helicase-DNA-binding protein 3
    Names
    CHD3-like protein

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Sus scrofa 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 Sscrofa11.1 Primary Assembly

    Genomic

    1. NC_010454.4 Reference Sscrofa11.1 Primary Assembly

      Range
      53135767..53163244
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021067837.1 → XP_020923496.1  chromodomain-helicase-DNA-binding protein 3 isoform X3

      UniProtKB/TrEMBL
      A0A480HEC1, A0A480XGB2
      Conserved Domains (9) summary
      smart00298
      Location:685 → 737
      CHROMO; Chromatin organization modifier domain
      PHA03169
      Location:1561 → 1742
      PHA03169; hypothetical protein; Provisional
      cd15531
      Location:433 → 475
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:510 → 552
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1430 → 1569
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:1364 → 1408
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:204 → 257
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:1790 → 1961
      CHDCT2; CHDCT2 (NUC038) domain
      cl26465
      Location:771 → 1325
      SNF2_N; SNF2 family N-terminal domain

    2. XM_021067836.1 → XP_020923495.1  chromodomain-helicase-DNA-binding protein 3 isoform X2

      UniProtKB/TrEMBL
      A0A480ISI0, A0A480XGB2
      Conserved Domains (9) summary
      smart00298
      Location:689 → 741
      CHROMO; Chromatin organization modifier domain
      PHA03169
      Location:1565 → 1746
      PHA03169; hypothetical protein; Provisional
      cd15531
      Location:437 → 479
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:514 → 556
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1434 → 1573
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:1368 → 1412
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:204 → 257
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:1794 → 1965
      CHDCT2; CHDCT2 (NUC038) domain
      cl26465
      Location:775 → 1329
      SNF2_N; SNF2 family N-terminal domain

    3. XM_021067838.1 → XP_020923497.1  chromodomain-helicase-DNA-binding protein 3 isoform X4

      UniProtKB/TrEMBL
      A0A287BIB9, A0A8D1AAP2
      Conserved Domains (9) summary
      smart00298
      Location:461 → 513
      CHROMO; Chromatin organization modifier domain
      PHA03169
      Location:1364 → 1545
      PHA03169; hypothetical protein; Provisional
      cd15531
      Location:209 → 251
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:286 → 328
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1233 → 1372
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:1167 → 1211
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:1 → 33
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:1593 → 1720
      CHDCT2; CHDCT2 (NUC038) domain
      cl26465
      Location:547 → 1128
      SNF2_N; SNF2 family N-terminal domain

    4. XM_021067839.1 → XP_020923498.1  chromodomain-helicase-DNA-binding protein 3 isoform X4

      UniProtKB/TrEMBL
      A0A287BIB9, A0A8D1AAP2
      Related
      ENSSSCP00000055885.2, ENSSSCT00000064898.3
      Conserved Domains (9) summary
      smart00298
      Location:461 → 513
      CHROMO; Chromatin organization modifier domain
      PHA03169
      Location:1364 → 1545
      PHA03169; hypothetical protein; Provisional
      cd15531
      Location:209 → 251
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:286 → 328
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1233 → 1372
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:1167 → 1211
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:1 → 33
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:1593 → 1720
      CHDCT2; CHDCT2 (NUC038) domain
      cl26465
      Location:547 → 1128
      SNF2_N; SNF2 family N-terminal domain

    5. XM_021067841.1 → XP_020923500.1  chromodomain-helicase-DNA-binding protein 3 isoform X5

      UniProtKB/TrEMBL
      A0A480XVH8
      Conserved Domains (10) summary
      smart00298
      Location:455 → 507
      CHROMO; Chromatin organization modifier domain
      PHA03169
      Location:1331 → 1512
      PHA03169; hypothetical protein; Provisional
      cd15531
      Location:203 → 245
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:280 → 322
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1200 → 1339
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:1134 → 1178
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:1 → 33
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:1560 → 1687
      CHDCT2; CHDCT2 (NUC038) domain
      cl26267
      Location:152 → 248
      ING; Inhibitor of growth proteins N-terminal histone-binding
      cl26465
      Location:541 → 1095
      SNF2_N; SNF2 family N-terminal domain

    6. XM_021067842.1 → XP_020923501.1  chromodomain-helicase-DNA-binding protein 3 isoform X6

      UniProtKB/TrEMBL
      A0A480IYI8, A0A8D0NDE0, A0A8D1R8I4
      Conserved Domains (9) summary
      smart00298
      Location:465 → 517
      CHROMO; Chromatin organization modifier domain
      PHA03169
      Location:1341 → 1522
      PHA03169; hypothetical protein; Provisional
      cd15531
      Location:213 → 255
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:290 → 332
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1210 → 1349
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:1144 → 1188
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:1 → 33
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:1570 → 1741
      CHDCT2; CHDCT2 (NUC038) domain
      cl26465
      Location:551 → 1105
      SNF2_N; SNF2 family N-terminal domain

    7. XM_021067843.1 → XP_020923502.1  chromodomain-helicase-DNA-binding protein 3 isoform X6

      UniProtKB/TrEMBL
      A0A480IYI8, A0A8D0NDE0, A0A8D1R8I4
      Conserved Domains (9) summary
      smart00298
      Location:465 → 517
      CHROMO; Chromatin organization modifier domain
      PHA03169
      Location:1341 → 1522
      PHA03169; hypothetical protein; Provisional
      cd15531
      Location:213 → 255
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:290 → 332
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1210 → 1349
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:1144 → 1188
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:1 → 33
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:1570 → 1741
      CHDCT2; CHDCT2 (NUC038) domain
      cl26465
      Location:551 → 1105
      SNF2_N; SNF2 family N-terminal domain

    8. XM_021067844.1 → XP_020923503.1  chromodomain-helicase-DNA-binding protein 3 isoform X7

      UniProtKB/TrEMBL
      A0A480J2A6, A0A8D0NBP6, A0A8D1R609
      Related
      ENSSSCP00000037269.3, ENSSSCT00000042642.3
      Conserved Domains (9) summary
      smart00298
      Location:461 → 513
      CHROMO; Chromatin organization modifier domain
      PHA03169
      Location:1337 → 1518
      PHA03169; hypothetical protein; Provisional
      cd15531
      Location:209 → 251
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:286 → 328
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1206 → 1345
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:1140 → 1184
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:1 → 33
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:1566 → 1737
      CHDCT2; CHDCT2 (NUC038) domain
      cl26465
      Location:547 → 1101
      SNF2_N; SNF2 family N-terminal domain

    9. XM_021067835.1 → XP_020923494.1  chromodomain-helicase-DNA-binding protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A480HQ26
      Conserved Domains (9) summary
      smart00298
      Location:631 → 683
      CHROMO; Chromatin organization modifier domain
      PHA03169
      Location:1534 → 1715
      PHA03169; hypothetical protein; Provisional
      cd15531
      Location:379 → 421
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:456 → 498
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1403 → 1542
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:1337 → 1381
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:146 → 199
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:1763 → 1890
      CHDCT2; CHDCT2 (NUC038) domain
      cl26465
      Location:717 → 1298
      SNF2_N; SNF2 family N-terminal domain

    10. XM_021067846.1 → XP_020923505.1  chromodomain-helicase-DNA-binding protein 3 isoform X9

      UniProtKB/TrEMBL
      A0A8D0NCK3
      Conserved Domains (9) summary
      PHA03418
      Location:1519 → 1659
      PHA03418; hypothetical E4 protein; Provisional
      smart00298
      Location:633 → 685
      CHROMO; Chromatin organization modifier domain
      cd15531
      Location:381 → 423
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:458 → 500
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1378 → 1517
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:1312 → 1356
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:148 → 201
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:1704 → 1875
      CHDCT2; CHDCT2 (NUC038) domain
      cl26465
      Location:719 → 1273
      SNF2_N; SNF2 family N-terminal domain

    11. XM_021067845.1 → XP_020923504.1  chromodomain-helicase-DNA-binding protein 3 isoform X8

      UniProtKB/TrEMBL
      A0A8D0NCK3
      Related
      ENSSSCP00000055609.2, ENSSSCT00000050125.3
      Conserved Domains (9) summary
      smart00298
      Location:633 → 685
      CHROMO; Chromatin organization modifier domain
      PHA03169
      Location:1509 → 1690
      PHA03169; hypothetical protein; Provisional
      cd15531
      Location:381 → 423
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:458 → 500
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1378 → 1517
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:1312 → 1356
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:148 → 201
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:1738 → 1909
      CHDCT2; CHDCT2 (NUC038) domain
      cl26465
      Location:719 → 1273
      SNF2_N; SNF2 family N-terminal domain
    Nucleotide Protein
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