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FAM98C Gene

protein-coding   GIFtS: 41
GCID: GC19P038893

Family With Sequence Similarity 98, Member C

  Search for FAM98C
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
Family With Sequence Similarity 98, Member C1 2
Protein FAM98C2

External Ids:    HGNC: 271191   Entrez Gene: 1479652   Ensembl: ENSG000001302447   UniProtKB: Q17RN33   

Export aliases for FAM98C gene to outside databases

Previous GC identifers: GC19P043586 GC19P035341


(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 FAM98C Gene:
FAM98C (family with sequence similarity 98, member C) is a protein-coding gene. An important paralog of this gene is FAM98B.


(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  NC_018930.2  NT_011109.17  
Regulatory elements:
   Regulatory transcription factor binding sites in the FAM98C gene promoter:
         E2F-3a   E2F-4   E2F-5   E2F-2   Nkx2-5   CREB   E2F-1   E2F   deltaCREB   Zic3   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidFAM98C promoter sequence
   Search Chromatin IP Primers for FAM98C

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat FAM98C


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

Entrez Gene cytogenetic band: 19q13.2   Ensembl cytogenetic band:  19q13.2   HGNC cytogenetic band: 19q13.2

FAM98C Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
FAM98C gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P038893:  view genomic region     (about GC identifiers)

Start:
38,893,775 bp from pter      End:
38,899,728 bp from pter
Size:
5,954 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: FA98C_HUMAN, Q17RN3 (See protein sequence)
Recommended Name: Protein FAM98C  
Size: 349 amino acids; 37329 Da
Secondary accessions: A6NMW3 Q66K45
Alternative splicing: 2 isoforms:  Q17RN3-1   Q17RN3-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for FAM98C: NX_Q17RN3

Explore proteomics data for FAM98C at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See FAM98C Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_777565.3  
    ENSEMBL proteins: 
     ENSP00000467974   ENSP00000252530   ENSP00000340348   ENSP00000467878   ENSP00000468553  

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    Cloud-Clone Corp. CLIAs for FAM98C


    (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:
     IPR018797 Uncharacterised_FAM98

    Graphical View of Domain Structure for InterPro Entry Q17RN3

    ProtoNet protein and cluster: Q17RN3

    UniProtKB/Swiss-Prot: FA98C_HUMAN, Q17RN3
    Similarity: Belongs to the FAM98 family


    FAM98C 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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    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for FAM98C
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for FAM98C
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    1 qRT-PCR Assays for microRNA that regulate FAM98C:
    hsa-miR-513a-3p
    SwitchGear 3'UTR luciferase reporter plasmidFAM98C 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat FAM98C

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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for FAM98C


    (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
    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 FAM98C
    Interactions:

        Search GeneGlobe Interaction Network for FAM98C

    STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

    2 Interacting proteins for FAM98C (ENSP000002525304) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    DDX1ENSP000002330844STRING: ENSP00000233084
    C14orf166ENSP000002617004STRING: ENSP00000261700
    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 FAM98C (FA98C)



    (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 FAM98C gene: 
    NM_174905.3  

    Unigene Cluster for FAM98C:

    Family with sequence similarity 98, member C
    Hs.355162  [show with all ESTs]
    Unigene Representative Sequence: BC036482
    10 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000588262 ENST00000252530(uc002oin.1 uc010xtz.1) ENST00000343358(uc002oio.1)
    ENST00000588348 ENST00000589408 ENST00000589029 ENST00000586372 ENST00000585954
    ENST00000592992 ENST00000589027
    miRNA
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    1 qRT-PCR Assays for microRNA that regulate FAM98C:
    hsa-miR-513a-3p
    SwitchGear 3'UTR luciferase reporter plasmidFAM98C 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat FAM98C
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat FAM98C
    Primer
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    Pre-validated RT2 qPCR Primer Assay in human, mouse / rat FAM98C
      QuantiTect SYBR Green Assays in human, mouse, rat FAM98C
      QuantiFast Probe-based Assays in human, mouse, rat FAM98C

    Additional mRNA sequence: 

    BC036482.1 BC080606.1 BC100033.1 BC117258.1 BC143830.1 BC171747.1 

    10 DOTS entries:

    DT.91744984  DT.86852752  DT.95173719  DT.100766441  DT.121491113  DT.121491083  DT.121491115  DT.86852753 
    DT.121491128  DT.40120799 

    Selected AceView cDNA sequences (see all 99):

    AA991264 AI394561 BG912692 BI194529 AI521978 BM128720 NM_174905 BX641941 
    AW438651 AW008711 BM739470 AA938488 BM976947 AI694713 BQ009291 BF591255 
    BM553325 AI693418 BF591640 BE348383 BC080606 BX641942 BQ420723 BE218354 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for FAM98C (see all 6)    About this scheme

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


    ECgene alternative splicing isoforms for FAM98C

    (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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    FAM98C expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TTCTCCAGAG
    FAM98C Expression
    About this image

    FAM98C Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    FAM98C Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.355162
        Custom PCR Arrays for FAM98C
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for FAM98C

    (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 animals.

    Orthologs for FAM98C gene from Selected species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Fam98c1 , 5 family with sequence similarity 98, member C1, 5 78.98(n)1
    75.08(a)1
      7 (16.94 cM)5
    738331  NM_001146023.11  NP_001139495.11 
     291525125 
    lizard
    (Anolis carolinensis)
    Reptilia FAM98C6
    family with sequence similarity 98, member C
    37(a)
    1 ↔ 1
    GL343427.1(456676-474571)
    zebrafish
    (Danio rerio)
    Actinopterygii FAM98C6
    family with sequence similarity 98, member C
    25(a)
    1 ↔ 1
    5(64852511-64859924) ENSDARG00000057245
    fruit fly
    (Drosophila melanogaster)
    Insecta CG59136
    --
    20(a)
    1 → many
    3R(21719219-21720748)
    worm
    (Caenorhabditis elegans)
    Secernentea tag-3226
    Protein TAG-322 (tag-322) mRNA, complete cds
    20(a)
    1 → many
    IV(7783967-7785556) WBGene00044326


    ENSEMBL Gene Tree for FAM98C (if available)
    TreeFam Gene Tree for FAM98C (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for FAM98C gene
    FAM98B2  FAM98A2  
    2 SIMAP similar genes for FAM98C using alignment to 5 protein entries:     FA98C_HUMAN (see all proteins):
    FAM98A    FAM98B

    FAM98C for paralogs           About GeneDecksing



    (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 FAM98C (see all 205)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1904786441,2
    --38891816(+) AGCCCA/CCCAAG 1 -- us2k10--------
    rs1131084091,2
    C--38891887(+) TTCTAC/-CCCTG 1 -- us2k11Minor allele frequency- -:0.50CSA 2
    rs1820664411,2
    --38891920(+) CCACCC/TCCAAC 1 -- us2k10--------
    rs1442506451,2
    --38891954(+) TACTGA/GATACC 1 -- us2k10--------
    rs1876675671,2
    --38891962(+) ACCAGC/GATACA 1 -- us2k10--------
    rs1473498501,2
    --38891984(+) ATTAGA/GTCTGA 1 -- us2k10--------
    rs730449401,2
    C,F--38892039(+) ACAGTG/AGAAAT 1 -- us2k15Minor allele frequency- A:0.20CSA WA EA 243
    rs1484378581,2
    --38892094(+) AGCCTC/TGGCAT 1 -- us2k10--------
    rs1890083211,2
    --38892148(+) TTTCTC/TTTCTG 1 -- us2k10--------
    rs730449421,2
    C,F--38892198(+) ATGCTG/ATATAT 1 -- us2k13Minor allele frequency- A:0.04CSA NA 124

    HapMap Linkage Disequilibrium report for FAM98C (38893775 - 38899728 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 8 variations for FAM98C:    About this table    
    Variant IDTypeSubtypePubMed ID
    dgv3857n71CNV Loss21882294
    nsv833823CNV Loss17160897
    dgv3858n71CNV Loss21882294
    nsv911658CNV Loss21882294
    nsv833822CNV Loss17160897
    nsv911659CNV Loss21882294
    nsv911660CNV Gain21882294
    nsv470140CNV Gain18288195

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing FAM98C
    DNA2.0 Custom Variant and Variant Library Synthesis for FAM98C

    (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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      --

    (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 FAM98C gene integrated from 10 sources:
    (articles sorted by number of sources associating them with FAM98C)
        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. Mass spectrometric analysis of lysine ubiquitylation reveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (amp 2011)
    4. The DNA sequence and biology of human chromosome 19. (PubMed id 15057824)2 Grimwood J.... Lucas S.M. (Nature 2004)

    (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: 147965 HGNC: 27119 AceView: LOC147965 Ensembl:ENSG00000130244 euGenes: HUgn147965
    ECgene: FAM98C H-InvDB: FAM98C

    (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 FAM98C 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 FAM98C gene:
    Search GeneIP for patents involving FAM98C

    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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