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IRGC Gene

protein-coding   GIFtS: 49
GCID: GC19P044220

Immunity-Related GTPase Family, Cinema

(Previous names: immunity-related GTPase family, cinema 1)
(Previous symbol: IRGC1)
  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Immunity-Related GTPase Family, Cinema1 2     R30953_12
IRGC11 2 3     Interferon Inducible GTPase 52
Immunity-Related GTPase Family, Cinema 11 2     Interferon-Gamma-Inducible GTPase IFGGE Protein2
Immunity-Related GTPase Cinema 12 3     Interferon-Inducible GTPase 52
CINEMA2     EC 3.6.5.-3
IFGGE2     IIGP53
Iigp52     EC 3.6.58

External Ids:    HGNC: 288351   Entrez Gene: 562692   Ensembl: ENSG000001244497   UniProtKB: Q6NXR03   

Export aliases for IRGC gene to outside databases

Previous GC identifers: GC19P048915 GC19P040652


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for IRGC Gene:
IRGC (immunity-related GTPase family, cinema) is a protein-coding gene. Diseases associated with IRGC include solar retinopathy, and hepatitis b. GO annotations related to this gene include hydrolase activity, acting on acid anhydrides and GTP binding. An important paralog of this gene is IRGM.

Gene Wiki entry for IRGC (Interferon-inducible GTPase 5) Gene


(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000019.10  NT_011109.17  NC_018930.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the IRGC gene promoter:
         Pax-5   AP-2gamma   MZF-1   Max   c-Rel   AP-2beta   AP-2alpha   Pax-4a   AP-2alphaA   c-Myc   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidIRGC promoter sequence
   Search Chromatin IP Primers for IRGC

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat IRGC


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

Entrez Gene cytogenetic band: 19q13.31   Ensembl cytogenetic band:  19q13.31   HGNC cytogenetic band: 19q13.32

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

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P044220:  view genomic region     (about GC identifiers)

Start:
44,220,162 bp from pter      End:
44,224,173 bp from pter
Size:
4,012 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: IIGP5_HUMAN, Q6NXR0 (See protein sequence)
Recommended Name: Interferon-inducible GTPase 5  
Size: 463 amino acids; 50288 Da
Secondary accessions: Q05BR8

Explore the universe of human proteins at neXtProt for IRGC: NX_Q6NXR0

Explore proteomics data for IRGC at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus
  • 4 DME Specific Peptides for IRGC (Q6NXR0)
     FYFVRTKVD  LEALRTAFESGD  MLQEQVLKTALV  GVIQALPVPGLAAAYDDALLI 


    See IRGC Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_062558.1  
    ENSEMBL proteins: 
     ENSP00000244314   ENSP00000471425  

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    Cloud-Clone Corp. CLIAs for IRGC


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    2 InterPro protein domains:
     IPR007743 Interferon-induced_GTPase
     IPR027417 P-loop_NTPase

    Graphical View of Domain Structure for InterPro Entry Q6NXR0

    ProtoNet protein and cluster: Q6NXR0

    UniProtKB/Swiss-Prot: IIGP5_HUMAN, Q6NXR0
    Similarity: Belongs to the interferon-inducible GTPase family


    IRGC for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: IIGP5_HUMAN, Q6NXR0
    Catalytic activity: GTP + H(2)O = GDP + phosphate

         Enzyme Numbers (IUBMB): EC 3.6.52 EC 3.6.5.-1

         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005525GTP binding IEA--
    GO:0016817hydrolase activity, acting on acid anhydrides IEA--
         
    IRGC for ontologies           About GeneDecksing


    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for IRGC
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for IRGC

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for IRGC
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for IRGC

    miRNA
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    miRTarBase miRNAs that target IRGC:
    hsa-mir-26b-5p (MIRT029888)

    Block miRNA regulation of human, mouse, rat IRGC using miScript Target Protectors
    1 qRT-PCR Assays for microRNA that regulate IRGC:
    hsa-miR-1262
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat IRGC

    Gene Editing
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    OriGene ORF clones in mouse, rat for IRGC
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    GenScript: all cDNA clones in your preferred vector: IRGC (NM_019612)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for IRGC
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat IRGC

    Cell Line
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for IRGC


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytosol2
    endoplasmic reticulum2
    extracellular2
    nucleus2
    mitochondrion1
    peroxisome1
    plasma membrane1

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016020membrane IEA--

    IRGC for ontologies           About GeneDecksing


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, 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 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for IRGC
    Interactions:

        Search GeneGlobe Interaction Network for IRGC

    STRING Interaction Network Preview (showing 5 interactants - click image to see 9)

    Selected Interacting proteins for IRGC (ENSP000002443144) via UniProtKB, MINT, STRING, and/or I2D (see all 9)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    UBCENSP000003448184STRING: ENSP00000344818
    UBBENSP000003046974STRING: ENSP00000304697
    GBP1ENSP000003595044STRING: ENSP00000359504
    GBP2ENSP000003594974STRING: ENSP00000359497
    GBP3ENSP000003595124STRING: ENSP00000359512
    About this table

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for IRGC (IIGP5)

    1 HMDB Compound for IRGC    About this table
    CompoundSynonyms CAS #PubMed Ids
    Guanosine triphosphate5'-GTP (see all 10)86-01-1--

    2 DrugBank Compounds for IRGC    About this table
    CompoundSynonyms CAS #TypeActionsPubMed Ids
    2-(N-Morpholino)-Ethanesulfonic Acid-- --target--10592235
    Guanosine-5'-Diphosphate-- 146-91-8target--10592235



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for IRGC gene: 
    NM_019612.3  

    Unigene Cluster for IRGC:

    Immunity-related GTPase family, cinema
    Hs.515444  [show with all ESTs]
    Unigene Representative Sequence: NM_019612
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000244314(uc002oxh.3) ENST00000596627
    miRNA
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    1 qRT-PCR Assays for microRNA that regulate IRGC:
    hsa-miR-1262
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat IRGC
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    OriGene ORF clones in mouse, rat for IRGC
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: IRGC (NM_019612)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for IRGC
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat IRGC
    Primer
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    OriGene qSTAR qPCR primer pairs in human, mouse for IRGC
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat IRGC
      QuantiTect SYBR Green Assays in human, mouse, rat IRGC
      QuantiFast Probe-based Assays in human, mouse, rat IRGC

    Additional mRNA sequence: 

    BC033853.1 BC066939.1 

    1 DOTS entry:

    DT.110227 

    Selected AceView cDNA sequences (see all 64):

    BI520533 BC033853 BE044229 AW873559 AI283570 NM_019612 BX103486 BE041516 
    BI825481 BE503483 BE044235 AI122717 AI125548 BI828548 BC066939 BI828552 
    BI826126 BE044223 BG722800 BI520032 AW104933 AW294021 AW418643 BI520261 

    GeneLoc Exon Structure


    (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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    IRGC expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CTCCAGGGCT
    IRGC Expression
    About this image

    IRGC Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    IRGC Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.515444
        Custom PCR Arrays for IRGC
    Primer
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for IRGC

    (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)
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    This gene was present in the common ancestor of chordates.

    Orthologs for IRGC gene from Selected species (see all 9)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Irgc11 , 5 immunity-related GTPase family, cinema 11, 5 85.54(n)1
    90.24(a)1
      7 (10.74 cM)5
    2101451  NM_199013.21  NP_950178.21 
     244319225 
    lizard
    (Anolis carolinensis)
    Reptilia IRGC6
    immunity-related GTPase family, cinema
    39(a)
    1 ↔ 1
    AAWZ02038161(913-1944)
    zebrafish
    (Danio rerio)
    Actinopterygii irgf16
    IRGC (2 of 7)6
    (see all 7)
    immunity-related GTPase family, cinema
    (see all 7)
    40(a)
    40(a)
    (see all 7)
    1 ↔ many
    1 ↔ many
    (see all 7)
    19(23782877-23786308) ENSDARG00000070774
    19(11746923-11752222) ENSDARG00000062828


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for IRGC gene
    IRGM2  
    2 SIMAP similar genes for IRGC using alignment to 2 protein entries:     IIGP5_HUMAN (see all proteins):
    IFGGE    IRGM

    IRGC for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for IRGC
    PGOHUM00000234713


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for IRGC (see all 217)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1920315481,2
    --44218217(+) GATCAC/TGGCTC 1 -- us2k10--------
    rs1844980911,2
    --44218367(+) CTCACA/GCCTGT 1 -- us2k10--------
    rs1454612451,2
    C--44218719(+) ACCTCA/GGCCTC 1 -- us2k10--------
    rs1411561741,2
    C--44218887(+) TGCTCA/GGTGTC 1 -- us2k10--------
    rs175600941,2
    C,F,H--44218921(+) GTTCAC/ATCTCT 1 -- us2k117Minor allele frequency- A:0.04NA NS EA 2122
    rs1892814221,2
    --44218971(+) TGAGTC/TGTGTG 1 -- us2k10--------
    rs3768961711,2
    C--44219030(+) TATGCA/GGCCAA 1 -- us2k10--------
    rs1136693991,2
    C--44219106(+) CTCCTC/TAGTTG 1 -- us2k11Minor allele frequency- T:0.00CSA 1
    rs680986541,2
    C--44219107(+) CCTTA-/CTCGTTGT 1 -- cds10--------
    rs1451155281,2
    --44219121(+) CAGAGC/GCTCCT 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for IRGC (44220162 - 44224173 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for IRGC:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv2503CNV Insertion18451855
    nsv833839CNV Loss17160897

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing IRGC
    DNA2.0 Custom Variant and Variant Library Synthesis for IRGC

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    3 diseases for IRGC:    About MalaCards
    solar retinopathy    hepatitis b    hepatitis


    IRGC for disorders           About GeneDecksing

    Human Genome Epidemiology (HuGE) Navigator: IRGC (1 document)

    Export disorders for IRGC 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 IRGC gene integrated from 10 sources:
    (articles sorted by number of sources associating them with IRGC)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    2. Interactions of pathological hallmark proteins: tubulin polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (J. Biol. Chem. 2011)
    3. New genetic associations detected in a host response study to hepatitis B vaccine. (PubMed id 20237496)1 Davila S....Seielstad M. (Genes Immun. 2010)
    4. The DNA sequence and biology of human chromosome 19. (PubMed id 15057824)2 Grimwood J.... Lucas S.M. (Nature 2004)
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    6. The Protein Data Bank. (PubMed id 10592235)7 Berman H.M....Bourne P.E. (Nucleic Acids Res. 2000)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 56269 HGNC: 28835 AceView: R30953_1 Ensembl:ENSG00000124449 euGenes: HUgn56269
    ECgene: IRGC H-InvDB: IRGC

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for IRGC 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 IRGC gene:
    Search GeneIP for patents involving IRGC

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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     Browse Kits and Assays available from EMD Millipore
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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014

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