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CHD6 chromodomain helicase DNA binding protein 6 [ Sus scrofa (pig) ]

Gene ID: 100519806, updated on 17-Aug-2024

Summary

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Official Symbol
CHD6provided by VGNC
Official Full Name
chromodomain helicase DNA binding protein 6provided by VGNC
Primary source
VGNC:VGNC:95903
See related
Ensembl:ENSSSCG00000007360
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 7.6), ovary (RPKM 7.1) and 8 other tissues See more
Orthologs
human mouse all
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Genomic context

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See CHD6 in Genome Data Viewer
Location:
chromosome: 17
Exon count:
38
Annotation release Status Assembly Chr Location
106 current Sscrofa11.1 (GCF_000003025.6) 17 NC_010459.5 (44048056..44265472, complement)
105 previous assembly Sscrofa10.2 (GCF_000003025.5) 17 NC_010459.4 (49502246..49555890, complement)

Chromosome 17 - NC_010459.5Genomic Context describing neighboring genes Neighboring gene lipin 3 Neighboring gene elastin microfibril interfacer 3 Neighboring gene ras-related protein R-Ras pseudogene Neighboring gene uncharacterized LOC110257407 Neighboring gene uncharacterized LOC106508477

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
  2. PEDE (Pig EST Data Explorer) has been expanded into Pig Expression Data Explorer, including 10 147 porcine full-length cDNA sequences. Uenishi H, et al. Nucleic Acids Res, 2007 Jan. PMID 17145712, Free PMC Article
  3. PEDE (Pig EST Data Explorer): construction of a database for ESTs derived from porcine full-length cDNA libraries. Uenishi H, et al. Nucleic Acids Res, 2004 Jan 1. PMID 14681463, Free PMC Article
  4. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables ATP-dependent chromatin remodeler activity IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables protein binding IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
chromodomain-helicase-DNA-binding protein 6
Names
CHD5-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_010459.5 Reference Sscrofa11.1 Primary Assembly

    Range
    44048056..44265472 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021077871.1 → XP_020933530.1  chromodomain-helicase-DNA-binding protein 6 isoform X4

    UniProtKB/TrEMBL
    A0A287BCC9, A0A4X1TPC9, A0A8D1Y1G0, F1SDV1
    Related
    ENSSSCP00000053744.2, ENSSSCT00000058435.3
    Conserved Domains (6) summary
    cd00024
    Location:294 → 354
    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 ...
    pfam00385
    Location:375 → 429
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    pfam10243
    Location:108 → 311
    MIP-T3; Microtubule-binding protein MIP-T3
    cl25751
    Location:109 → 192
    DUF4045; Domain of unknown function (DUF4045)
    cl26464
    Location:2321 → 2710
    Atrophin-1; Atrophin-1 family
    cl26465
    Location:460 → 985
    SNF2_N; SNF2 family N-terminal domain

  2. XM_021077869.1 → XP_020933528.1  chromodomain-helicase-DNA-binding protein 6 isoform X2

    UniProtKB/TrEMBL
    A0A4X1TPC9
    Conserved Domains (6) summary
    cd00024
    Location:294 → 354
    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 ...
    pfam00385
    Location:375 → 429
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    pfam10243
    Location:108 → 311
    MIP-T3; Microtubule-binding protein MIP-T3
    cl25751
    Location:109 → 192
    DUF4045; Domain of unknown function (DUF4045)
    cl26464
    Location:2339 → 2728
    Atrophin-1; Atrophin-1 family
    cl26465
    Location:460 → 1003
    SNF2_N; SNF2 family N-terminal domain

  3. XM_021077870.1 → XP_020933529.1  chromodomain-helicase-DNA-binding protein 6 isoform X3

    UniProtKB/TrEMBL
    A0A4X1TPC9
    Conserved Domains (5) summary
    cd00024
    Location:296 → 356
    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 ...
    pfam00385
    Location:377 → 431
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    cl25751
    Location:118 → 228
    DUF4045; Domain of unknown function (DUF4045)
    cl26464
    Location:2323 → 2712
    Atrophin-1; Atrophin-1 family
    cl26465
    Location:462 → 987
    SNF2_N; SNF2 family N-terminal domain

  4. XM_021077872.1 → XP_020933531.1  chromodomain-helicase-DNA-binding protein 6 isoform X5

    UniProtKB/TrEMBL
    A0A4X1TPG6, A0A8D1RVJ4
    Conserved Domains (6) summary
    cd00024
    Location:296 → 356
    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 ...
    pfam00385
    Location:377 → 431
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    cl02688
    Location:2361 → 2395
    BRK; BRK domain
    cl25751
    Location:118 → 228
    DUF4045; Domain of unknown function (DUF4045)
    cl26464
    Location:2339 → 2665
    Atrophin-1; Atrophin-1 family
    cl26465
    Location:462 → 1005
    SNF2_N; SNF2 family N-terminal domain

  5. XM_021077868.1 → XP_020933527.1  chromodomain-helicase-DNA-binding protein 6 isoform X1

    UniProtKB/TrEMBL
    A0A4X1TPC9
    Conserved Domains (5) summary
    cd00024
    Location:296 → 356
    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 ...
    pfam00385
    Location:377 → 431
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    cl25751
    Location:118 → 228
    DUF4045; Domain of unknown function (DUF4045)
    cl26464
    Location:2341 → 2730
    Atrophin-1; Atrophin-1 family
    cl26465
    Location:462 → 1005
    SNF2_N; SNF2 family N-terminal domain
Nucleotide Protein
Heading Accession and Version

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