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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

HIRIP3 Gene

protein-coding   GIFtS: 53
GCID: GC16M030005

HIRA interacting protein 3

(Previous name: HIRA-interacting protein 3 )
 Explore 2 diseases affiliated with
HIRIP3 via our new
 Human Malady Compendium 
Biological research products
for HIRIP3
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
HIRA Interacting Protein 31 2
HIRA-Interacting Protein 31 2

External Ids:    HGNC: 49171   Entrez Gene: 84792   Ensembl: ENSG000001499297   OMIM: 6033655   UniProtKB: Q9BW713   

Export aliases for HIRIP3 gene to outside databases

Previous GC identifers: GC16P029153 GC16M030326 GC16M030002 GC16M030041 GC16M029911 GC16M027665


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for HIRIP3:
The HIRA protein shares sequence similarity with Hir1p and Hir2p, the two corepressors of histone gene transcription
characterized in the yeast, Saccharomyces cerevisiae. The structural features of the HIRA protein suggest that it may
function as part of a multiprotein complex. Several cDNAs encoding HIRA-interacting proteins, or HIRIPs, have been
identified. In vitro, the protein encoded by this gene binds HIRA, as well as H2B and H3 core histones, indicating
that a complex containing HIRA-HIRIP3 could function in some aspects of chromatin and histone metabolism.
Alternatively spliced transcript variants encoding distinct isoforms have been found for this gene.(provided by
RefSeq, Aug 2011)

UniProtKB/Swiss-Prot: HIRP3_HUMAN, Q9BW71
Function: May play a role in chromatin function and histone metabolism via its interaction with HIRA and histones

Gene Wiki entry for HIRIP3


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000016.9  NC_018927.1  NT_010393.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the HIRIP3 gene promoter:
         E2F-4   E2F-3a   E2F-5   Nkx2-5   E2F-2   AREB6   RORalpha1   E2F   E2F-1   ARP-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidHIRIP3 promoter sequence
   Search SABiosciences Chromatin IP Primers for HIRIP3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat HIRIP3


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 16p11.2   Ensembl cytogenetic band:  16p11.2   HGNC cytogenetic band: 16p12.1

HIRIP3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
HIRIP3 gene location

GeneLoc information about chromosome 16         GeneLoc Exon Structure

GeneLoc location for GC16M030005:  view genomic region     (about GC identifiers)

Start:
30,003,645 bp from pter      End:
30,007,757 bp from pter
Size:
4,113 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: HIRP3_HUMAN, Q9BW71 (See protein sequence)
Recommended Name: HIRA-interacting protein 3  
Size: 556 amino acids; 61957 Da
Subunit: Interacts with HIRA. Weak interaction with histones H2B and H3. Interacts with CK2
Subcellular location: Nucleus. Note=Nuclear throughout the cell cycle and is excluded from condensed chromatin during
mitosis
Secondary accessions: H3BSR3 O75707 O75708
Alternative splicing: 3 isoforms:  Q9BW71-1   Q9BW71-2   Q9BW71-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for HIRIP3: NX_Q9BW71

Post-translational modifications:

  • Phosphorylated by CK21
  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9BW71

  • HIRIP3 Protein expression data from MOPED and PaxDb:    About this image 
    HIRIP3 Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_001184252.1  NP_003600.2  

    ENSEMBL proteins: 
     ENSP00000279392   ENSP00000456824  

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    Uscn Proteins for HIRIP3

    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA17391060

    HIRIP3 for ontologies           About GeneDecksing



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    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    HIRIP3 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR019098 Histone_chaperone_domain_CHZ

    Graphical View of Domain Structure for InterPro Entry Q9BW71

    ProtoNet protein and cluster: Q9BW71


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, Sirion Biotech, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, Sirion Biotech, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: HIRP3_HUMAN, Q9BW71
    Function: May play a role in chromatin function and histone metabolism via its interaction with HIRA and histones

         Genatlas biochemistry entry for HIRIP3:
    HIRA-interacting protein 3,widely expressed an histone (H2B,H3) binding protein,directly interacting with the WD-repeat
    protein HIRA

         Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding IPI9710638
         
    HIRIP3 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for HIRIP3:
     Increased gamma-H2AX phosphory 

    Animal Models:
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    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for HIRIP3

    STRING Interaction Network Preview (showing 5 interactants - click image to see 7)

    5/22 Interacting proteins for HIRIP3 (Q9BW712, 3 ENSP000002793924) via UniProtKB, MINT, STRING, and/or I2D (see all 22)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HIST1H4AP628053, ENSP000003529804I2D: score=1 STRING: ENSP00000352980
    HIST1H4BP628053I2D: score=1 
    HIST1H4CP628053I2D: score=1 
    HIST1H4DP628053I2D: score=1 
    HIST1H4EP628053I2D: score=1 
    About this table

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006333chromatin assembly or disassembly TAS9710638

    HIRIP3 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
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    Browse Tocris compounds for HIRIP3

    1 HMDB Compound for HIRIP3    About this table
    CompoundSynonyms CAS #PubMed Ids
    Docosanoyl-CoAbehenoyl-CoA (see all 2)----
    Search CenterWatch for drugs/clinical trials and news about HIRIP3 / HIRP3 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, Sirion Biotech, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for HIRIP3 gene (2 alternative transcripts): 
    NM_001197323.1  NM_003609.4  

    Unigene Cluster for HIRIP3:

    HIRA interacting protein 3
    Hs.567370  [show with all ESTs]
    Unigene Representative Sequence: NM_003609
    7 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000279392(uc002dve.3 uc002dvf.3) ENST00000564026 ENST00000563053
    ENST00000563680 ENST00000566471 ENST00000565996 ENST00000568880

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    Additional cDNA sequence: 

    AJ223349.1 AJ223350.1 AJ223351.2 AK312504.1 BC000588.2 

    17 DOTS entries:

    DT.92439846  DT.95268337  DT.92026640  DT.310247  DT.102844277  DT.92445465  DT.91798357  DT.100770026 
    DT.100888195  DT.120696685  DT.95268349  DT.100691939  DT.92439863  DT.100888204  DT.91988194  DT.92439845 
    DT.95229021 

    24/189 AceView cDNA sequences (see all 189):

    CB215002 CB152379 BU729840 BM672428 AV652687 BI871167 CF139162 BC000588 
    BQ682147 AK075145 CB242662 Z40329 BQ880688 BM702893 BM550751 BU730222 
    BQ648822 CD672609 BX101682 CR623473 BU902630 BM671426 BE326341 BE207110 

    GeneLoc Exon Structure

    5/10 Alternative Splicing Database (ASD) splice patterns (SP) for HIRIP3 (see all 10)    About this scheme

    ExUns: 1a · 1b · 1c · 1d · 1e · 1f ^ 2 ^ 3a · 3b · 3c · 3d ^ 4a · 4b · 4c · 4d · 4e ^ 5 ^ 6 ^ 7a · 7b ^ 8a · 8b · 8c
    SP1:                                            -     -           -                             -     -                                       
    SP2:                                            -     -           -     -     -     -     -     -     -                                       
    SP3:                                            -     -           -                                                                           
    SP4:                                                              -     -     -     -     -     -     -                                       
    SP5:                                                                                                                                          


    ECgene alternative splicing isoforms for HIRIP3

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    HIRIP3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TACAAAGCAT
    HIRIP3 Expression
    About this image
    See HIRIP3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for HIRIP3

    SOURCE GeneReport for Unigene cluster: Hs.567370

    UniProtKB/Swiss-Prot: HIRP3_HUMAN, Q9BW71
    Tissue specificity: Widely expressed. Isoform 1 is predominant in skeletal muscle. Isoform 2 is predominant in liver
    and heart

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    In Situ
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of eukaryotes.

    Orthologs for HIRIP3 gene from 6/13 species (see all 13)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Hirip31 , 5 HIRA interacting protein 31, 5 73.73(n)1
    64.5(a)1
      7 (69.25 cM)5
    2338761  NM_172746.31  NP_766334.11 
     1268619725 
    lizard
    (Anolis carolinensis)
    Reptilia HIRIP36
    --
    29(a)
    1 ↔ 1
    GL343606.1(329924-341897)
    zebrafish
    (Danio rerio)
    Actinopterygii hirip31 HIRA interacting protein 3 44.83(n)
    35.9(a)
      100000570  NM_199823.1  NP_956117.1 
    honey bee
    (Apis mellifera)
    Insecta --
    --
    28(a)
    1 ↔ 1
    GroupUn.5984(9518-9965)
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT1G447806
    AT4G083106
    uncharacterized protein
    10(a)
    10(a)
    many → 1
    many → 1
    1(16909708-16912270)
    4(5248864-5252150)
    rice
    (Oryza sativa)
    Liliopsida --
    expressed protein
    11(a)
    1 ↔ 1
    11(19552183-19558871)


    ENSEMBL Gene Tree for HIRIP3 (if available)
    TreeFam Gene Tree for HIRIP3 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
      --

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/142 NCBI SNPs in HIRIP3 are shown (see all 142    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 16 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs47874901,2
    C,F,H--27664418(+) TTGTCC/GTTTAT 1 -- ut318Minor allele frequency- G:0.01NS EA NA 560
    rs1125337591,2
    C--27664769(+) TCAACC/TCCTTG 1 -- ds50012Minor allele frequency- T:0.04NA 122
    rs799551361,2
    --27664951(+) GGCTAC/GGACTG 1 -- ds50010--------
    rs285057751,2
    C--27665033(+) AGGGAG/AAAGGC 1 -- ds50012Minor allele frequency- A:0.00NA 4
    rs779229171,2
    --27665083(+) CAAGTG/AGGCAT 1 -- ds50011Minor allele frequency- A:0.01WA 118
    rs1820910091,2
    --30003187(+) CCCCTG/TGGGGA 3 -- ut31 ds50010--------
    rs1852853761,2
    --30003372(+) TCTTCC/TCGTAA 3 -- ut31 ds50010--------
    rs1399984841,2
    --30003373(+) CTTCCC/TGTAAC 3 -- ut31 ds50010--------
    rs1908810851,2
    --30003409(+) CCTTTA/TTCTTT 3 -- ds5001 ut310--------
    rs1829265961,2
    --30003587(+) ATCTCA/GGGACT 3 -- ds50010--------

    HapMap Linkage Disequilibrium report for HIRIP3 (30003645 - 30007757 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for HIRIP3
         1 CNV: 35383

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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    HIRIP3 for disorders           About GeneDecksing

    OMIM gene information: 603365    OMIM disorders: --

    2 diseases for HIRIP3:    About MalaCards
    velocardiofacial syndrome    digeorge syndrome

    2 diseases from the University of Copenhagen DISEASES database for HIRIP3:
    DiGeorge syndrome     Velocardiofacial syndrome
    Human Genome Epidemiology (HuGE) Navigator: HIRIP3 (1 document)

    Export disorders for HIRIP3 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for HIRIP3 gene, integrated from 9 sources (see all 24):
    (articles sorted by number of sources associating them with HIRIP3)
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    1. Core histones and HIRIP3, a novel histone-binding protein, directly interact with WD repeat protein HIRA. (PubMed id 9710638)1, 2, 3, 9 Lorain S.... Lipinski M. (1998)
    2. HIRIP3 is a nuclear phosphoprotein interacting with and phosphorylated by the serine-threonine kinase CK2. (PubMed id 17391060)1, 2, 9 Assrir N.... Lipinski M. (2007)
    3. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PubMed id 16964243)1, 2 Beausoleil S.A.... Gygi S.P. (2006)
    4. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (2006)
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    6. A high-throughput approach for measuring temporal chan ges in the interactome. (PubMed id 22863883)1 Kristensen A.R....Foster L.J. (2012)
    7. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    8. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (2011)
    9. Interactions of pathological hallmark proteins: tubul in polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (2011)
    10. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (2010)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 8479 HGNC: 4917 AceView: HIRIP3 Ensembl:ENSG00000149929 euGenes: HUgn8479
    ECgene: HIRIP3 H-InvDB: HIRIP3

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for HIRIP3 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for HIRIP3 gene:
    Search GeneIP for patents involving HIRIP3

    GeneCards and IP:
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