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INO80E INO80 complex subunit E [ Homo sapiens (human) ]

Gene ID: 283899, updated on 3-Apr-2024

Summary

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Official Symbol
INO80Eprovided by HGNC
Official Full Name
INO80 complex subunit Eprovided by HGNC
Primary source
HGNC:HGNC:26905
See related
Ensembl:ENSG00000169592 AllianceGenome:HGNC:26905
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CCDC95
Summary
Predicted to be involved in DNA recombination; DNA repair; and chromatin remodeling. Located in nucleolus and nucleoplasm. Part of Ino80 complex. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in testis (RPKM 18.0), spleen (RPKM 15.7) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
16p11.2
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (29996241..30005791)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (30278881..30288431)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (30007562..30017112)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124903762 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7346 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:29985672-29986443 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:29987081-29987582 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:29987583-29988082 Neighboring gene TAO kinase 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:30002153-30002740 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:30004428-30004928 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:30004929-30005429 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10686 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10687 Neighboring gene HIRA interacting protein 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:30015046-30015830 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7347 Neighboring gene double C2 domain alpha Neighboring gene chromosome 16 open reading frame 92 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:30039801-30040645 Neighboring gene TLC domain containing 3B Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7348 Neighboring gene MPRA-validated peak2562 silencer Neighboring gene uncharaterized LOC112694756 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:30064875-30065853 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:30065854-30066831 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:30076132-30076912 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7349 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7350 Neighboring gene aldolase, fructose-bisphosphate A

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Global Analysis of SUMO-Binding Proteins Identifies SUMOylation as a Key Regulator of the INO80 Chromatin Remodeling Complex. Cox E, et al. Mol Cell Proteomics, 2017 May. PMID 28254775, Free PMC Article
  2. INO80 is required for oncogenic transcription and tumor growth in non-small cell lung cancer. Zhang S, et al. Oncogene, 2017 Mar. PMID 27641337, Free PMC Article
  3. The mammalian INO80 chromatin remodeling complex is required for replication stress recovery. Vassileva I, et al. Nucleic Acids Res, 2014 Aug. PMID 25016522, Free PMC Article
  4. Negative Regulation of p21Waf1/Cip1 by Human INO80 Chromatin Remodeling Complex Is Implicated in Cell Cycle Phase G2/M Arrest and Abnormal Chromosome Stability. Cao L, et al. PLoS One, 2015. PMID 26340092, Free PMC Article
  5. YY1 functions with INO80 to activate transcription. Cai Y, et al. Nat Struct Mol Biol, 2007 Sep. PMID 17721549

See all (41) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Biological insights from 108 schizophrenia-associated genetic loci.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Replication interactions

Interaction Pubs
Knockdown of INO80 complex subunit E (INO80E) by siRNA enhances the early stages of HIV-1 replication in HeLa-CD4 cells infected with viral pseudotypes HIV89.6R and HIV8.2N PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ00079, FLJ90652

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in DNA recombination IEA
Inferred from Electronic Annotation
more info
  
involved_in DNA repair IEA
Inferred from Electronic Annotation
more info
  
involved_in chromatin remodeling IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of DNA repair ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of telomere maintenance in response to DNA damage ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of DNA repair ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of DNA replication IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of DNA strand elongation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of cell cycle IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of chromosome organization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of embryonic development ISO
Inferred from Sequence Orthology
more info
  
involved_in telomere maintenance ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of Ino80 complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of Ino80 complex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleolus IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  

General protein information

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Preferred Names
INO80 complex subunit E
Names
coiled-coil domain containing 95
coiled-coil domain-containing protein 95

NCBI Reference Sequences (RefSeq)

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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_001304562.2 → NP_001291491.1  INO80 complex subunit E isoform 2

    See identical proteins and their annotated locations for NP_001291491.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AC093512, AL525020, BC047712, BI093312
    Consensus CDS
    CCDS76853.1
    UniProtKB/TrEMBL
    H3BNM4, J3KNE2
    Related
    ENSP00000303977.7, ENST00000304516.11
    Conserved Domains (1) summary
    pfam08537
    Location:12 → 65
    NBP1; Fungal Nap binding protein NBP1

  2. NM_001304563.2 → NP_001291492.1  INO80 complex subunit E isoform 3

    See identical proteins and their annotated locations for NP_001291492.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) contains an alternate exon in the 3' end compared to variant 1. The resulting isoform (3) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AC093512, AL525020, BC047712, BU528528
    UniProtKB/TrEMBL
    I3NI13

  3. NM_173618.3 → NP_775889.1  INO80 complex subunit E isoform 1

    See identical proteins and their annotated locations for NP_775889.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AC093512, AK075133, BC047712
    Consensus CDS
    CCDS10665.1
    UniProtKB/Swiss-Prot
    Q6Y2K3, Q8NBZ0
    UniProtKB/TrEMBL
    H3BNM4
    Related
    ENSP00000457016.1, ENST00000563197.6

RNA

  1. NR_130786.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses an alternate splice junction at the 5' end of an internal exon and contains an alternate exon in the 3' end compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC093512, AL525020, BC047712, BM924992, BX356644

  2. NR_130787.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) uses an alternate splice junction at the 5' end of an internal exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC093512, AL525020, BC047712, BM924992

  3. NR_134855.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) contains four alternate internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL525020, BC035693
    Related
    ENST00000567987.5

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    29996241..30005791
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011545812.4 → XP_011544114.1  INO80 complex subunit E isoform X11

    UniProtKB/TrEMBL
    I3NI13

  2. XM_047433982.1 → XP_047289938.1  INO80 complex subunit E isoform X2

  3. XM_047433983.1 → XP_047289939.1  INO80 complex subunit E isoform X3

  4. XM_047433984.1 → XP_047289940.1  INO80 complex subunit E isoform X4

  5. XM_047433985.1 → XP_047289941.1  INO80 complex subunit E isoform X5

  6. XM_047433987.1 → XP_047289943.1  INO80 complex subunit E isoform X8

  7. XM_011545809.4 → XP_011544111.1  INO80 complex subunit E isoform X7

    UniProtKB/TrEMBL
    I3NI13

  8. XM_024450238.2 → XP_024306006.1  INO80 complex subunit E isoform X6

    UniProtKB/TrEMBL
    I3NI13

  9. XM_047433981.1 → XP_047289937.1  INO80 complex subunit E isoform X1

  10. XM_024450236.2 → XP_024306004.1  INO80 complex subunit E isoform X6

    UniProtKB/TrEMBL
    I3NI13

  11. XM_011545811.4 → XP_011544113.1  INO80 complex subunit E isoform X10

    See identical proteins and their annotated locations for XP_011544113.1

    UniProtKB/TrEMBL
    I3L270
    Related
    ENSP00000461808.1, ENST00000567254.5

  12. XM_047433988.1 → XP_047289944.1  INO80 complex subunit E isoform X9

  13. XM_047433989.1 → XP_047289945.1  INO80 complex subunit E isoform X12

    Related
    ENSP00000484187.1, ENST00000620599.4

RNA

  1. XR_002957798.2 RNA Sequence

  2. XR_007064869.1 RNA Sequence

  3. XR_007064870.1 RNA Sequence

  4. XR_002957799.2 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    30278881..30288431
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054380132.1 → XP_054236107.1  INO80 complex subunit E isoform X3

  2. XM_054380141.1 → XP_054236116.1  INO80 complex subunit E isoform X11

  3. XM_054380131.1 → XP_054236106.1  INO80 complex subunit E isoform X2

  4. XM_054380133.1 → XP_054236108.1  INO80 complex subunit E isoform X4

  5. XM_054380134.1 → XP_054236109.1  INO80 complex subunit E isoform X5

  6. XM_054380138.1 → XP_054236113.1  INO80 complex subunit E isoform X8

  7. XM_054380137.1 → XP_054236112.1  INO80 complex subunit E isoform X7

  8. XM_054380135.1 → XP_054236110.1  INO80 complex subunit E isoform X6

  9. XM_054380130.1 → XP_054236105.1  INO80 complex subunit E isoform X1

  10. XM_054380136.1 → XP_054236111.1  INO80 complex subunit E isoform X6

  11. XM_054380140.1 → XP_054236115.1  INO80 complex subunit E isoform X10

  12. XM_054380139.1 → XP_054236114.1  INO80 complex subunit E isoform X9

  13. XM_054380142.1 → XP_054236117.1  INO80 complex subunit E isoform X12

RNA

  1. XR_008489077.1 RNA Sequence

  2. XR_008489078.1 RNA Sequence

  3. XR_008489079.1 RNA Sequence

  4. XR_008489080.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8NBZ0.1 GenPept UniProtKB/Swiss-Prot:Q8NBZ0

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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