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FAM71C Gene

protein-coding   GIFtS: 41
GCID: GC12P100041

Family With Sequence Similarity 71, Member C

  Search for FAM71C
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 71, Member C1 2
Protein FAM71C2

External Ids:    HGNC: 285941   Entrez Gene: 1964722   Ensembl: ENSG000001802197   UniProtKB: Q8NEG03   

Export aliases for FAM71C gene to outside databases

Previous GC identifers: GC12P098544 GC12P097103


(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 FAM71C Gene:
FAM71C (family with sequence similarity 71, member C) is a protein-coding gene. An important paralog of this gene is FAM71E2.


(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_000012.12  NC_018923.2  NT_029419.13  
Regulatory elements:
   Regulatory transcription factor binding sites in the FAM71C gene promoter:
         TBP   ISGF-3   SREBP-1c   FOXD3   Meis-1b   SREBP-1b   SREBP-1a   FOXJ2 (long isoform)   FOXJ2   LyF-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidFAM71C promoter sequence
   Search Chromatin IP Primers for FAM71C

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat FAM71C


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

Entrez Gene cytogenetic band: 12q23.1   Ensembl cytogenetic band:  12q23.1   HGNC cytogenetic band: 12q23.1

FAM71C Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
FAM71C gene location

GeneLoc information about chromosome 12         GeneLoc Exon Structure

GeneLoc location for GC12P100041:  view genomic region     (about GC identifiers)

Start:
100,041,531 bp from pter      End:
100,043,827 bp from pter
Size:
2,297 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, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: FA71C_HUMAN, Q8NEG0 (See protein sequence)
Recommended Name: Protein FAM71C  
Size: 241 amino acids; 27472 Da
Secondary accessions: B2R6Y6

Explore the universe of human proteins at neXtProt for FAM71C: NX_Q8NEG0

Explore proteomics data for FAM71C at MOPED


See FAM71C Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_699195.1  
ENSEMBL proteins: 
 ENSP00000315247  

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Cloud-Clone Corp. CLIAs for FAM71C


(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:
 IPR022168 DUF3699

Graphical View of Domain Structure for InterPro Entry Q8NEG0

ProtoNet protein and cluster: Q8NEG0

UniProtKB/Swiss-Prot: FA71C_HUMAN, Q8NEG0
Similarity: Belongs to the FAM71 family


FAM71C 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 FAM71C
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5 qRT-PCR Assays for microRNAs that regulate FAM71C:
hsa-miR-641 hsa-miR-3130-3p hsa-miR-767-5p hsa-miR-3617 hsa-miR-299-3p
SwitchGear 3'UTR luciferase reporter plasmidFAM71C 3' UTR sequence
Inhib. RNA
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Predesigned siRNA for gene silencing in human, mouse, rat FAM71C

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In Situ Assay
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Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for FAM71C


(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
cytoskeleton1
extracellular1
nucleus1

(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 FAM71C
Interactions:

    Search GeneGlobe Interaction Network for FAM71C

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

2 Interacting proteins for FAM71C (Q8NEG02, 3 ENSP000003152474) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
RAB2AP610192, 3, ENSP000002626464MINT-68362 I2D: score=4 STRING: ENSP00000262646
DNAJB9ENSP000002493564STRING: ENSP00000249356
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(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 FAM71C (FA71C)



(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, Primers from OriGene, and/or QIAGEN )
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REFSEQ mRNAs for FAM71C gene: 
NM_153364.3  

Unigene Cluster for FAM71C:

Family with sequence similarity 71, member C
Hs.591011  [show with all ESTs]
Unigene Representative Sequence: NM_153364
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000324341(uc001tgn.3)
miRNA
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5 qRT-PCR Assays for microRNAs that regulate FAM71C:
hsa-miR-641 hsa-miR-3130-3p hsa-miR-767-5p hsa-miR-3617 hsa-miR-299-3p
SwitchGear 3'UTR luciferase reporter plasmidFAM71C 3' UTR sequence
Inhib. RNA
Products:
     
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Predesigned siRNA for gene silencing in human, mouse, rat FAM71C
Clone
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Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat FAM71C
Primer
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Pre-validated RT2 qPCR Primer Assay in human, mouse / rat FAM71C
  QuantiTect SYBR Green Assays in human, mouse, rat FAM71C
  QuantiFast Probe-based Assays in human, mouse, rat FAM71C

Additional mRNA sequence: 

AK312767.1 BC031221.1 

2 DOTS entries:

DT.95247500  DT.40118982 

11 AceView cDNA sequences:

CD359339 AA292900 BM559533 BM554034 AA401734 BG773186 NM_153364 BC031221 
BP369879 BI465312 AW181907 

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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FAM71C expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GTGCAGAGGT
FAM71C Expression
About this image

FAM71C Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

FAM71C Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.591011
    Custom PCR Arrays for FAM71C
Primer
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for FAM71C

(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 FAM71C gene from Selected species (see all 5)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
dog
(Canis familiaris)
Mammalia FAM71C6
family with sequence similarity 71, member C
29(a)
1 ↔ 1
14(1694869-1697623)
lizard
(Anolis carolinensis)
Reptilia --
--
Uncharacterized protein
45(a)
38(a)
many ↔ many
many ↔ many
6(71330920-71334054)
6(71352843-71360031)


ENSEMBL Gene Tree for FAM71C (if available)
TreeFam Gene Tree for FAM71C (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for FAM71C gene
FAM71E22  FAM71E12  FAM71B2  FAM71D2  FAM71F22  FAM71A2  ENSG000002677062  FAM71F12  
5 SIMAP similar genes for FAM71C using alignment to 1 protein entry:     FA71C_HUMAN:
FAM71B    FAM71A    FAM71D    FAM71E2    FAM71E1

FAM71C for paralogs           About GeneDecksing


1 Pseudogenes.org Pseudogene for FAM71C
PGOHUM00000249720


(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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2 SNPs for FAM71C    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 12 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs111099691,2,4
----see VAR_0296392 mis40--------
rs111099681,2,4
----see VAR_0296382 mis40--------

HapMap Linkage Disequilibrium report for FAM71C (100041531 - 100043827 bp)

Structural Variations
     Database of Genomic Variants (DGV) 1 variation for FAM71C:    About this table    
Variant IDTypeSubtypePubMed ID
esv32717CNV Gain17666407

Human Gene Mutation Database (HGMD): FAM71C
Site Specific Mutation Identification with PCR Assays
Search QIAGEN SeqTarget long-range PCR primers for resequencing FAM71C
DNA2.0 Custom Variant and Variant Library Synthesis for FAM71C

(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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FAM71C for disorders           About GeneDecksing


Export disorders for FAM71C 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 FAM71C gene integrated from 10 sources:
(articles sorted by number of sources associating them with FAM71C)
    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. Toward an understanding of the protein interaction network of the human liver. (PubMed id 21988832)1 Wang J....Yang X. (Mol. Syst. Biol. 2011)
  4. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (Genomics 2007)
  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. Towards a proteome-scale map of the human protein-protein interaction network. (PubMed id 16189514)1 Rual J.F....Vidal M. (Nature 2005)
  7. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (Nat. Genet. 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: 196472 HGNC: 28594 AceView: MGC39520 Ensembl:ENSG00000180219 euGenes: HUgn196472
ECgene: FAM71C H-InvDB: FAM71C

(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 FAM71C 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 FAM71C gene:
Search GeneIP for patents involving FAM71C

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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