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FAM104A Gene

protein-coding   GIFtS: 36
GCID: GC17M071203

Family With Sequence Similarity 104, 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 104, Member A1 2
Protein FAM104A2

External Ids:    HGNC: 259181   Entrez Gene: 849232   Ensembl: ENSG000001331937   UniProtKB: Q969W33   
ORGUL members:         

Export aliases for FAM104A gene to outside databases

Previous GC identifers: GC17M068716 GC17M066612


(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 FAM104A Gene:
FAM104A (family with sequence similarity 104, member A) is a protein-coding gene. An important paralog of this gene is FAM104B.


(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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Regulatory elements:
   Regulatory transcription factor binding sites in the FAM104A gene promoter:
         STAT1   AML1a   MEF-2   MyoD   Nkx2-5   STAT1alpha   C/EBPalpha   MEF-2A   aMEF-2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidFAM104A promoter sequence
   Search Chromatin IP Primers for FAM104A

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat FAM104A


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

Entrez Gene cytogenetic band: 17q25.1   Ensembl cytogenetic band:  17q25.1   HGNC cytogenetic band: 17q25.1

FAM104A Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
FAM104A gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17M071203:  view genomic region     (about GC identifiers)

Start:
71,203,492 bp from pter      End:
71,232,892 bp from pter
Size:
29,401 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: F104A_HUMAN, Q969W3 (See protein sequence)
Recommended Name: Protein FAM104A  
Size: 186 amino acids; 19484 Da
Sequence caution: Sequence=AAH11054.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Sequence=AAH25238.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=BAB55292.1;
Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=BAC11183.1; Type=Erroneous
initiation; Note=Translation N-terminally extended;
Secondary accessions: B4E339
Alternative splicing: 2 isoforms:  Q969W3-1   Q969W3-2   

Explore the universe of human proteins at neXtProt for FAM104A: NX_Q969W3

Explore proteomics data for FAM104A at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See FAM104A Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (5 alternative transcripts): 
    NP_001092302.1  NP_001276339.1  NP_001276340.1  NP_001276341.1  NP_116226.2  

    ENSEMBL proteins: 
     ENSP00000384648   ENSP00000384832   ENSP00000462781   ENSP00000462840   ENSP00000462806  
     ENSP00000462507  

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    antibodies-online kits for FAM104A (2 products) 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    ProtoNet protein and cluster: Q969W3

    UniProtKB/Swiss-Prot: F104A_HUMAN, Q969W3
    Similarity: Belongs to the FAM104 family


    (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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    Phenotypes:
         1 GenomeRNAi human phenotype for FAM104A:
     Decreased TP53 protein express 

         3 MGI mutant phenotypes (inferred from 1 allele(MGI details for Fam104a):
     cellular  hematopoietic system  immune system 

    Find genes that share phenotypes with FAM104A           About GenesLikeMe

    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for FAM104A

    miRNA
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    miRTarBase miRNAs that target FAM104A:
    hsa-let-7d-5p (MIRT032171), hsa-mir-183-5p (MIRT025019), hsa-mir-196a-5p (MIRT026086), hsa-mir-34a-5p (MIRT025497), hsa-mir-18a-5p (MIRT050694)

    Block miRNA regulation of human, mouse, rat FAM104A using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate FAM104A (see all 62):
    hsa-miR-607 hsa-let-7d hsa-miR-513a-5p hsa-miR-624 hsa-miR-301a hsa-miR-30d hsa-let-7g hsa-miR-124
    SwitchGear 3'UTR luciferase reporter plasmidFAM104A 3' UTR sequence
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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
    nucleus3
    cytosol2
    extracellular1

    (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 FAM104A
    Interactions:

        Search GeneGlobe Interaction Network for FAM104A

    (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 FAM104A (F104A)



    (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 FAM104A gene (5 alternative transcripts): 
    NM_001098832.1  NM_001289410.1  NM_001289411.1  NM_001289412.1  NM_032837.2  

    7 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000403627 ENST00000405159(uc002jjj.4 uc002jji.4) ENST00000583178
    ENST00000580032 ENST00000581110 ENST00000579872 ENST00000583024
    miRNA
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    Selected qRT-PCR Assays for microRNAs that regulate FAM104A (see all 62):
    hsa-miR-607 hsa-let-7d hsa-miR-513a-5p hsa-miR-624 hsa-miR-301a hsa-miR-30d hsa-let-7g hsa-miR-124
    SwitchGear 3'UTR luciferase reporter plasmidFAM104A 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat FAM104A
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat FAM104A
    Primer
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    OriGene qPCR primer pairs and template standards for FAM104A
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      QuantiTect SYBR Green Assays in human, mouse, rat FAM104A
      QuantiFast Probe-based Assays in human, mouse, rat FAM104A

    Selected AceView cDNA sequences (see all 232):

    AK027681 AI863659 BU630756 BM423910 AI147224 BM930907 CB154919 AA242900 
    CB306168 BE876431 BM976293 BQ008898 CD364915 AI631597 AI768146 BM684423 
    CR624411 BG255671 R29378 AA482533 CA429207 AA242770 AW025742 NM_032837 

    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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    FAM104A expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CACACAGCAC
    FAM104A Expression
    About this image

    FAM104A Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    FAM104A Protein Expression
        Custom PCR Arrays for FAM104A
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for FAM104A

    (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 FAM104A gene from Selected species (see all 9)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Fam104a1 , 5 DNA segment, Chr 11, Wayne State University 99, expressed5
    family with sequence similarity 104, member A1
    76.99(n)1
    72.28(a)1
      11 (79.12 cM)5
    280811  NM_138598.51  NP_613064.21 
     1136613195 
    chicken
    (Gallus gallus)
    Aves FAM104A1 family with sequence similarity 104, member A 72.06(n)
    69.52(a)
      417450  NM_001030708.1  NP_001025879.1 
    lizard
    (Anolis carolinensis)
    Reptilia --
    Uncharacterized protein
    66(a)
    1 → many
    2(96806177-96812470)


    ENSEMBL Gene Tree for FAM104A (if available)
    TreeFam Gene Tree for FAM104A (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for FAM104A gene
    FAM104B2  
    1 SIMAP similar gene for FAM104A using alignment to 5 protein entries:     F104A_HUMAN (see all proteins):
    FAM104B

    Find genes that share paralogs with FAM104A           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 FAM104A (see all 526)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs588857301,2
    C--66635011(+) CACAG-/TGAG  
            
    ACTCC
    2 -- int11Minor allele frequency- TGAG:0.00NA 2
    rs1818200301,2
    --71205184(+) TGGCAA/GTTAAT 2 -- ut310--------
    rs1863976031,2
    --71205238(+) ACTTAC/TGTTTT 2 -- ut310--------
    rs2014432231,2
    --71205246(+) TTTTT-/CATGGAA 2 -- ut310--------
    rs1509876901,2
    C--71205315(+) AAAGGC/TCCTTT 2 -- ut310--------
    rs733569221,2
    C,F--71205380(+) ACTATG/CGATTC 2 -- ut311Minor allele frequency- C:0.50WA 2
    rs1880073511,2
    --71205437(+) TGATAA/CCCTCC 2 -- ut310--------
    rs1809439871,2
    --71205492(+) TTGCAA/GTAGTG 2 -- ut310--------
    rs1862959211,2
    --71205613(+) TTGAAA/GTATCA 2 -- ut310--------
    rs2009005601,2
    C--71205734(+) TTGATA/GTGGAA 4 H syn10--------

    HapMap Linkage Disequilibrium report for FAM104A (71203492 - 71232892 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for FAM104A:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2186746CNV Deletion18987734
    esv2667654CNV Deletion23128226
    esv2562139CNV Deletion19546169
    nsv833534CNV Loss17160897

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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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      --

    (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 FAM104A gene integrated from 10 sources:
    (articles sorted by number of sources associating them with FAM104A)
        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. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    3. Mapping and characterization of novel (CAG)n repeat cDNAs from adult human brain derived by the oligo capture method. (PubMed id 9417904)1, 2 Reddy P.H.... Tagle D.A. (Genomics 1997)
    4. Pathway Analysis of ChIP-Seq-Based NRF1 Target Genes Suggests a Logical Hypothesis of their Involvement in the Pathogenesis of Neurodegenerative Diseases. (PubMed id 24250222)1 Satoh J....Yamamoto Y. (Gene Regul Syst Bio 2013)
    5. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (Genome Res. 2006)
    6. DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. (PubMed id 16625196)2 Zody M.C.... Nusbaum C. (Nature 2006)
    7. 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: 84923 HGNC: 25918 AceView: FLJ14775 Ensembl:ENSG00000133193 euGenes: HUgn84923
    ECgene: FAM104A H-InvDB: FAM104A

    (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 FAM104A 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 FAM104A gene:
    Search GeneIP for patents involving FAM104A

    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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