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IFFO2 Gene

protein-coding   GIFtS: 40
GCID: GC01M019230

Intermediate Filament Family Orphan 2

  Search for IFFO2
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
Intermediate Filament Family Orphan 21 2

External Ids:    HGNC: 270061   Entrez Gene: 1269172   Ensembl: ENSG000001699917   UniProtKB: Q5TF583   

Export aliases for IFFO2 gene to outside databases

Previous GC identifers: GC01M019106 GC01M017474


(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 IFFO2 Gene:
IFFO2 (intermediate filament family orphan 2) is a protein-coding gene. GO annotations related to this gene include structural molecule activity. An important paralog of this gene is ENSG00000255275.


(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 at NCBI GenBank:
NC_000001.10  NC_018912.2  NT_032977.10  
Regulatory elements:
   Regulatory transcription factor binding sites in the IFFO2 gene promoter:
         c-Fos   AP-1   JunB   Fra-1   FosB   Nkx2-5   C/EBPalpha   JunD   FOXJ2   c-Jun   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for IFFO2

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat IFFO2


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

Entrez Gene cytogenetic band: 1p36.13   Ensembl cytogenetic band:  1p36.13   HGNC cytogenetic band: 1p36.13

IFFO2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
IFFO2 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M019230:  view genomic region     (about GC identifiers)

Start:
19,230,774 bp from pter      End:
19,283,180 bp from pter
Size:
52,407 bases      Orientation:
minus 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, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: IFFO2_HUMAN, Q5TF58 (See protein sequence)
Recommended Name: Intermediate filament family orphan 2  
Size: 517 amino acids; 57328 Da
Sequence caution: Sequence=CAI23419.1; Type=Erroneous gene model prediction;
Secondary accessions: Q9H7K0

Explore the universe of human proteins at neXtProt for IFFO2: NX_Q5TF58

Explore proteomics data for IFFO2 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys303
  • Modification sites at PhosphoSitePlus

  • See IFFO2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001129737.1  
    ENSEMBL proteins: 
     ENSP00000387941   ENSP00000347820   ENSP00000394655  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    IFFO: Intermediate filament family orphans

    2 InterPro protein domains:
     IPR026665 Iffo1/2
     IPR001664 IF

    Graphical View of Domain Structure for InterPro Entry Q5TF58

    ProtoNet protein and cluster: Q5TF58


    Find genes that share domains with IFFO2           About GenesLikeMe


    (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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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         Gene Ontology (GO): 1 molecular function term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005198structural molecule activity IEA--
         
    Find genes that share ontologies with IFFO2           About GenesLikeMe


    Animal Models:
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    (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
    nucleus2
    endoplasmic reticulum1
    peroxisome1

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005882intermediate filament IEA--

    Find genes that share ontologies with IFFO2           About GenesLikeMe


    (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 IFFO2
    Interactions:

        Search GeneGlobe Interaction Network for IFFO2

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    1 Interacting protein for IFFO2 (ENSP000003879414) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    UBCENSP000003448184STRING: ENSP00000344818
    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 IFFO2



    (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,
    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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for IFFO2 gene: 
    NM_001136265.1  

    Unigene Cluster for IFFO2:

    Intermediate filament family orphan 2
    Hs.466625  [show with all ESTs]
    Unigene Representative Sequence: NM_001136265
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000455833(uc001bbd.2) ENST00000355609 ENST00000416166
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    hsa-miR-140-5p hsa-miR-1321 hsa-miR-199a-3p hsa-miR-128 hsa-miR-200a hsa-miR-30d hsa-miR-578 hsa-miR-342-3p
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      QuantiFast Probe-based Assays in human, mouse, rat IFFO2

    Additional mRNA sequence: 

    AK024480.1 BC063709.1 

    5 DOTS entries:

    DT.451693  DT.100773053  DT.100773043  DT.75102462  DT.91883379 

    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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    IFFO2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    IFFO2 Expression
    About this image


    IFFO2 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     
     Inner Cell Mass (Early Embryonic Tissues)    fully expand to see all 2 entries
             Line H9 (Naive)
    IFFO2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    IFFO2 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.466625
        Custom PCR Arrays for IFFO2
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    In Situ
    Assay Products:
     

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

    Orthologs for IFFO2 gene from Selected species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Iffo21 , 5 intermediate filament family orphan 21, 5 90.17(n)1
    92.77(a)1
      4 (70.73 cM)5
    2126321  NM_001205173.11  NP_001192102.11 
     1395305485 
    chicken
    (Gallus gallus)
    Aves IFFO21 intermediate filament family orphan 2 79.5(n)
    87.16(a)
      419468  XM_003642530.2  XP_003642578.1 
    lizard
    (Anolis carolinensis)
    Reptilia --
    Uncharacterized protein
    83(a)
    1 → many
    GL344244.1(31028-61523)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia iffo21 intermediate filament family orphan 2 78.72(n)
    82.43(a)
      100144962  XM_002942192.2  XP_002942238.2 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC1001505021 intermediate filament family orphan 2-like 69.08(n)
    70.4(a)
      100150502  XM_005162200.1  XP_005162257.1 


    ENSEMBL Gene Tree for IFFO2 (if available)
    TreeFam Gene Tree for IFFO2 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for IFFO2 gene
    ENSG000002552752  IFFO12  
    4 SIMAP similar genes for IFFO2 using alignment to 3 protein entries:     IFFO2_HUMAN (see all proteins):
    DKFZp586I2223    IFFO1    DKFZp686D0339    DES

    Find genes that share paralogs with IFFO2           About GenesLikeMe



    (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 IFFO2 (see all 1090)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs770385311,2
    F--19231305(+) TCCCCC/TCAGGG 1 -- ut311Minor allele frequency- T:0.03NA 120
    rs1397023391,2
    C--19231436(+) GACCCA/GCAAAG 1 -- ut310--------
    rs1929524051,2
    --19231462(+) AAGTCA/GTGTGC 1 -- ut310--------
    rs22952281,2
    C,F--19231477(+) ACTGTC/TACCCA 1 -- ut31 ese31Minor allele frequency- T:0.05EA 1496
    rs1837871171,2
    C--19231609(+) AATGCA/GCCTTG 1 -- ut310--------
    rs1879217251,2
    --19231625(+) TCCCCC/TACCCA 1 -- ut310--------
    rs284780261,2
    C,F--19231800(+) AGGCCG/AGGGGA 1 -- ut31 ese32Minor allele frequency- A:0.02NA 122
    rs1918514571,2
    --19231904(+) AAAACC/GCTTCC 1 -- ut310--------
    rs1836164291,2
    --19231998(+) ACCCCC/TTCTCC 1 -- ut310--------
    rs768025331,2
    C--19232017(+) CAAGCG/TTAAGT 1 -- ut310--------

    HapMap Linkage Disequilibrium report for IFFO2 (19230774 - 19283180 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 3 variations for IFFO2:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2744796CNV Deletion23290073
    nsv512722CNV Insertion21212237
    nsv834347CNV Gain17160897

    Site Specific Mutation Identification with PCR Assays
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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.)
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    Find genes that share disorders with IFFO2           About GenesLikeMe

    Genetic Association Database (GAD): IFFO2

    Export disorders for IFFO2 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 IFFO2 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with IFFO2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2, 3 Ota T.... Sugano S. (Nat. Genet. 2004)
    2. Systematic and quantitative assessment of the ubiquitin-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (Mol. Cell 2011)
    3. A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (amp 2011)
    4. Systematic analysis of human protein complexes identifies chromosome segregation proteins. (PubMed id 20360068)1 Hutchins J.R.... Peters J.M. (Science 2010)
    5. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)2 Gregory S.G.... Bentley D.R. (Nature 2006)
    6. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (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: 126917 HGNC: 27006 Ensembl:ENSG00000169991 euGenes: HUgn126917 ECgene: IFFO2
    H-InvDB: IFFO2

    (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 IFFO2 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 IFFO2 gene:
    Search GeneIP for patents involving IFFO2

    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, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, 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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