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FAM117A Gene

protein-coding   GIFtS: 43
GCID: GC17M047787

Family With Sequence Similarity 117, Member A

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(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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This gene clusters with an RNA gene
Subcategory (RNA class): antisense

Quality score for the ORGUL clustered with this gene is 3

Aliases
Family With Sequence Similarity 117, Member A1 2
C/EBP Induced Protein1 2
C/EBP-Induced Protein2 3
Protein FAM117A2

External Ids:    HGNC: 241791   Entrez Gene: 815582   Ensembl: ENSG000001211047   UniProtKB: Q9C0733   
ORGUL members:         

Export aliases for FAM117A gene to outside databases

Previous GC identifers: GC17M045143 GC17M043152


(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 FAM117A Gene:
FAM117A (family with sequence similarity 117, member A) is a protein-coding gene. An important paralog of this gene is FAM117B.


(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_000017.10  NC_018928.2  NT_010783.16  
Regulatory elements:
   Regulatory transcription factor binding sites in the FAM117A gene promoter:
         E2F-4   E2F-3a   E2F-5   E2F-2   NRSF form 2   Evi-1   c-Rel   E2F   E2F-1   GATA-6   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidFAM117A promoter sequence
   Search Chromatin IP Primers for FAM117A

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat FAM117A


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

Entrez Gene cytogenetic band: 17q21.33   Ensembl cytogenetic band:  17q21.33   HGNC cytogenetic band: 17q21.33

FAM117A Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
FAM117A gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17M047787:  view genomic region     (about GC identifiers)

Start:
47,787,687 bp from pter      End:
47,866,542 bp from pter
Size:
78,856 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., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: F117A_HUMAN, Q9C073 (See protein sequence)
Recommended Name: Protein FAM117A  
Size: 453 amino acids; 48319 Da

Explore the universe of human proteins at neXtProt for FAM117A: NX_Q9C073

Explore proteomics data for FAM117A at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See FAM117A Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_110429.1  
    ENSEMBL proteins: 
     ENSP00000240364   ENSP00000465808   ENSP00000467070   ENSP00000427326   ENSP00000421412  

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    antibodies-online proteins for FAM117A (3 products) 

     
    antibodies-online peptides for FAM117A

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    antibodies-online antibodies for FAM117A (4 products) 

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    antibodies-online kits for FAM117A (4 products) 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    1 InterPro protein domain:
     IPR026642 Glcci1/FAM117

    Graphical View of Domain Structure for InterPro Entry Q9C073

    ProtoNet protein and cluster: Q9C073

    UniProtKB/Swiss-Prot: F117A_HUMAN, Q9C073
    Similarity: Belongs to the FAM117 family


    Find genes that share domains with FAM117A           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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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    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for FAM117A

    miRNA
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    miRTarBase miRNAs that target FAM117A:
    hsa-mir-484 (MIRT042130)

    Block miRNA regulation of human, mouse, rat FAM117A using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate FAM117A (see all 48):
    hsa-miR-21* hsa-miR-520e hsa-miR-302d hsa-miR-300 hsa-miR-99b* hsa-miR-106a hsa-miR-3122 hsa-miR-9
    SwitchGear 3'UTR luciferase reporter plasmidFAM117A 3' UTR sequence
    Inhib. RNA
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat FAM117A

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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for FAM117A


    (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
    mitochondrion2
    nucleus2
    extracellular1
    peroxisome1

    (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 FAM117A
    Interactions:

        Search GeneGlobe Interaction Network for FAM117A

    1 Interacting protein for FAM117A (Q9C0733) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    BCAR3O758153I2D: score=1 
    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 FAM117A (F117A)



    (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 FAM117A gene: 
    NM_030802.3  

    Unigene Cluster for FAM117A:

    Family with sequence similarity 117, member A
    Hs.514308  [show with all ESTs]
    Unigene Representative Sequence: BC037572
    12 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000240364(uc002ipk.3 uc010wlz.2) ENST00000513602 ENST00000503573
    ENST00000511743 ENST00000503855 ENST00000514018 ENST00000505159 ENST00000506156
    ENST00000515240 ENST00000509347 ENST00000503720 ENST00000514841
    miRNA
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    Selected qRT-PCR Assays for microRNAs that regulate FAM117A (see all 48):
    hsa-miR-21* hsa-miR-520e hsa-miR-302d hsa-miR-300 hsa-miR-99b* hsa-miR-106a hsa-miR-3122 hsa-miR-9
    SwitchGear 3'UTR luciferase reporter plasmidFAM117A 3' UTR sequence
    Inhib. RNA
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    OriGene RNAi products in human, mouse, rat for FAM117A
    Predesigned siRNA for gene silencing in human, mouse, rat FAM117A
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    GenScript: all cDNA clones in your preferred vector: FAM117A (NM_030802)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for FAM117A
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat FAM117A
    Primer
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    OriGene qSTAR qPCR primer pairs in human, mouse for FAM117A
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat FAM117A
      QuantiTect SYBR Green Assays in human, mouse, rat FAM117A
      QuantiFast Probe-based Assays in human, mouse, rat FAM117A

    Additional mRNA sequence: 

    AF123073.1 AK302376.1 BC037572.1 BC065199.1 

    9 DOTS entries:

    DT.442943  DT.100839573  DT.100777100  DT.120954723  DT.95147793  DT.120954654  DT.95265669  DT.95328959 
    DT.40189392 

    Selected AceView cDNA sequences (see all 112):

    BC065199 BF446631 AW028838 BM706100 BM709306 T32267 BM710124 BM552901 
    BM702274 CR596320 AI923143 AI568710 BM662634 BF794133 BU629096 AI199194 
    BM671304 BU732452 AI275544 BP341162 AA317391 N45274 AA295111 AW008670 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for FAM117A (see all 6)    About this scheme

    ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9 ^ 10 ^ 11a · 11b ^ 12a · 12b
    SP1:        -           -     -                             -                                 
    SP2:                                                        -                                 
    SP3:                    -     -                                                               
    SP4:                                                                                          
    SP5:                          -                                                               


    ECgene alternative splicing isoforms for FAM117A

    (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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    FAM117A expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CCTCCCTCTC
    FAM117A Expression
    About this image

    FAM117A Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    FAM117A Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.514308
        Custom PCR Arrays for FAM117A
    Primer
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for FAM117A

    (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 FAM117A gene from Selected species (see all 10)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Fam117a1 , 5 family with sequence similarity 117, member A1, 5 86.64(n)1
    86.32(a)1
      11 (59.01 cM)5
    2155121  NM_172543.41  NP_766131.21 
     953370185 
    chicken
    (Gallus gallus)
    Aves FAM117A6
    family with sequence similarity 117, member A
    57(a)
    1 ↔ 1
    27(3102832-3119721)
    lizard
    (Anolis carolinensis)
    Reptilia FAM117A6
    family with sequence similarity 117, member A
    53(a)
    1 ↔ 1
    6(76798984-76813541)
    zebrafish
    (Danio rerio)
    Actinopterygii cdh12 cadherin 1, epithelial 75.9(n)    BM529950.1 


    ENSEMBL Gene Tree for FAM117A (if available)
    TreeFam Gene Tree for FAM117A (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for FAM117A gene
    FAM117B2  GLCCI12  
    1 SIMAP similar gene for FAM117A using alignment to 5 protein entries:     F117A_HUMAN (see all proteins):
    GLCCI1

    Find genes that share paralogs with FAM117A           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 FAM117A (see all 814)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1493685641,2
    C--47787473(+) CACCCC/TCTTCA 1 -- int10--------
    rs1446851861,2
    --47787526(+) GTAAAC/GTATGC 1 -- int10--------
    rs1900453181,2
    --47787562(+) CTCTGA/TGTACA 1 -- int10--------
    rs762782411,2
    C,F--47787594(+) GGGAAT/CTGAGG 1 -- int11Minor allele frequency- C:0.03NA 120
    rs1810938511,2
    --47787694(+) CAAGCG/TGCTGG 1 -- ut310--------
    rs1480752411,2
    C--47787936(+) CGGGCA/GGAGAG 1 -- ut310--------
    rs781998861,2
    C,F--47788105(+) AGCAGC/GTGAAT 1 -- ut313Minor allele frequency- G:0.06WA NA EA 358
    rs1418074501,2
    C--47788124(+) TGTTAC/TGGCCC 1 -- ut310--------
    rs1460252301,2
    C--47788590(+) CTCTAC/TGGTAA 1 -- ut310--------
    rs1996215511,2
    --47788607(+) GCAGGA/GGTGGG 1 -- ut310--------

    HapMap Linkage Disequilibrium report for FAM117A (47787687 - 47866542 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for FAM117A:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2660684CNV Deletion23128226
    nsv111821CNV Loss16902084
    esv23674CNV Loss19812545
    nsv525469CNV Gain19592680

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing FAM117A
    DNA2.0 Custom Variant and Variant Library Synthesis for FAM117A

    (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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      --

    (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 FAM117A gene integrated from 10 sources:
    (articles sorted by number of sources associating them with FAM117A)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. 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. (Genome Res. 2004)
    2. 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)
    3. The protein interaction landscape of the human CMGC kinase group. (PubMed id 23602568)1 Varjosalo M....Gstaiger M. (Cell Rep 2013)
    4. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (Sci. Signal. 2011)
    5. Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. (PubMed id 19690332)2 Mayya V.... Han D.K. (Sci. Signal. 2009)
    6. (PubMed id )2 

    (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: 81558 HGNC: 24179 AceView: LOC81558 Ensembl:ENSG00000121104 euGenes: HUgn81558
    ECgene: FAM117A H-InvDB: FAM117A

    (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 FAM117A 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 FAM117A gene:
    Search GeneIP for patents involving FAM117A

    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, eBioscience, antibodies-online, 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 genOway)
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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 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

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