Human Gene EIF3C (uc002dph.4) Description and Page Index
  Description: Homo sapiens eukaryotic translation initiation factor 3, subunit C (EIF3C), transcript variant 2, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr16:28,390,900-28,415,165 Size: 24,266 Total Exon Count: 21 Strand: -
Coding Region
   Position: hg19 chr16:28,391,119-28,414,939 Size: 23,821 Coding Exon Count: 20 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:28,390,900-28,415,165)mRNA (may differ from genome)Protein (913 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeStanford SOURCETreefam
UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: EIF3C_HUMAN
DESCRIPTION: RecName: Full=Eukaryotic translation initiation factor 3 subunit C; Short=eIF3c; AltName: Full=Eukaryotic translation initiation factor 3 subunit 8; AltName: Full=eIF3 p110;
FUNCTION: Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is required for several steps in the initiation of protein synthesis. The eIF-3 complex associates with the 40S ribosome and facilitates the recruitment of eIF-1, eIF-1A, eIF-2:GTP:methionyl-tRNAi and eIF-5 to form the 43S preinitiation complex (43S PIC). The eIF-3 complex stimulates mRNA recruitment to the 43S PIC and scanning of the mRNA for AUG recognition. The eIF-3 complex is also required for disassembly and recycling of post-termination ribosomal complexes and subsequently prevents premature joining of the 40S and 60S ribosomal subunits prior to initiation.
SUBUNIT: Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is composed of 13 subunits: EIF3A, EIF3B, EIF3C, EIF3D, EIF3E, EIF3F, EIF3G, EIF3H, EIF3I, EIF3J, EIF3K, EIF3L and EIF3M. The eIF-3 complex appears to include 3 stable modules: module A is composed of EIF3A, EIF3B, EIF3G and EIF3I; module B is composed of EIF3F, EIF3H, and EIF3M; and module C is composed of EIF3C, EIF3D, EIF3E, EIF3K and EIF3L. EIF3C of module C binds EIF3B of module A and EIF3H of module B, thereby linking the three modules. EIF3J is a labile subunit that binds to the eIF-3 complex via EIF3B. The eIF-3 complex interacts with RPS6KB1 under conditions of nutrient depletion. Mitogenic stimulation leads to binding and activation of a complex composed of MTOR and RPTOR, leading to phosphorylation and release of RPS6KB1 and binding of EIF4B to eIF-3. Identified in a HCV IRES-mediated translation complex, at least composed of EIF3C, IGF2BP1, RPS3 and HCV RNA-replicon. Interacts with IFIT1 and IFIT2.
INTERACTION: O00571:DDX3X; NbExp=3; IntAct=EBI-353741, EBI-353779; Q9Q2G4:ORF (xeno); NbExp=5; IntAct=EBI-353741, EBI-6248094;
SUBCELLULAR LOCATION: Cytoplasm (By similarity).
PTM: Phosphorylated. Phosphorylation is enhanced upon serum stimulation.
MASS SPECTROMETRY: Mass=106143.8; Method=Unknown; Range=1-913; Source=PubMed:17322308;
MASS SPECTROMETRY: Mass=106855; Mass_error=40; Method=MALDI; Range=1-913; Source=PubMed:18599441;
SIMILARITY: Belongs to the eIF-3 subunit C family.
SIMILARITY: Contains 1 PCI domain.
WEB RESOURCE: Name=Atlas of Genetics and Cytogenetics in Oncology and Haematology; URL="http://atlasgeneticsoncology.org//Genes/EIF3CID44187ch16p11.html";

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): EIF3C
CDC HuGE Published Literature: EIF3C
Positive Disease Associations: inflammatory bowel disease (early onset)
Related Studies:
  1. inflammatory bowel disease (early onset)
    Imielinski ,et al. 2009, Common variants at five new loci associated with early-onset inflammatory bowel disease, Nature genetics 2009 41- 12 : 1335-40. [PubMed 19915574]

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 11.39 RPKM in Cervix - Endocervix
Total median expression: 402.51 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -53.80137-0.393 Picture PostScript Text
3' UTR -45.22219-0.206 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR008905 - eIF3c_N
IPR000717 - PCI_dom
IPR011991 - WHTH_trsnscrt_rep_DNA-bd

Pfam Domains:
PF01399 - PCI domain
PF05470 - Eukaryotic translation initiation factor 3 subunit 8 N-terminus

SCOP Domains:
46785 - "Winged helix" DNA-binding domain

ModBase Predicted Comparative 3D Structure on Q99613
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0003743 translation initiation factor activity
GO:0005515 protein binding
GO:0031369 translation initiation factor binding

Biological Process:
GO:0006412 translation
GO:0006413 translational initiation
GO:0045727 positive regulation of translation
GO:1902416 positive regulation of mRNA binding

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005852 eukaryotic translation initiation factor 3 complex


-  Descriptions from all associated GenBank mRNAs
  BC001571 - Homo sapiens eukaryotic translation initiation factor 3, subunit C, mRNA (cDNA clone MGC:5500 IMAGE:3452953), complete cds.
JD096939 - Sequence 77963 from Patent EP1572962.
AK292155 - Homo sapiens cDNA FLJ78287 complete cds, highly similar to Homo sapiens eukaryotic translation initiation factor 3, subunit 8,110kDa (EIF3S8), mRNA.
AK130531 - Homo sapiens cDNA FLJ27021 fis, clone SLV06146, highly similar to Eukaryotic translation initiation factor 3 subunit 8.
AK000739 - Homo sapiens cDNA FLJ20732 fis, clone HEP08682.
BC021066 - Homo sapiens cDNA clone IMAGE:3509356, **** WARNING: chimeric clone ****.
BC071705 - Homo sapiens eukaryotic translation initiation factor 3, subunit C, mRNA (cDNA clone MGC:87986 IMAGE:5552014), complete cds.
AK293264 - Homo sapiens cDNA FLJ54488 complete cds, highly similar to Eukaryotic translation initiation factor 3 subunit 8.
AY762099 - Homo sapiens cell migration-inducing protein 17 mRNA, complete cds.
BC000533 - Homo sapiens eukaryotic translation initiation factor 3, subunit C, mRNA (cDNA clone IMAGE:2964655), complete cds.
AK055366 - Homo sapiens cDNA FLJ30804 fis, clone FEBRA2001267, highly similar to Eukaryotic translation initiation factor 3 subunit 8.
AK299421 - Homo sapiens cDNA FLJ55750 complete cds, highly similar to Eukaryotic translation initiation factor 3 subunit 8.
AK303790 - Homo sapiens cDNA FLJ54400 complete cds, highly similar to Eukaryotic translation initiation factor 3 subunit 8.
AK304500 - Homo sapiens cDNA FLJ54404 complete cds, highly similar to Eukaryotic translation initiation factor 3 subunit 8.
AK301183 - Homo sapiens cDNA FLJ55450 complete cds, highly similar to Eukaryotic translation initiation factor 3 subunit 8.
BX648075 - Homo sapiens mRNA; cDNA DKFZp686M21210 (from clone DKFZp686M21210).
JD303750 - Sequence 284774 from Patent EP1572962.
JD430643 - Sequence 411667 from Patent EP1572962.
BC157849 - Homo sapiens eukaryotic translation initiation factor 3, subunit C, mRNA (cDNA clone MGC:189744 IMAGE:9057068), complete cds.
AK301233 - Homo sapiens cDNA FLJ53378 complete cds, highly similar to Eukaryotic translation initiation factor 3 subunit 8.
BC157842 - Homo sapiens eukaryotic translation initiation factor 3, subunit C-like, mRNA (cDNA clone MGC:189737 IMAGE:9057061), complete cds.
KJ892588 - Synthetic construct Homo sapiens clone ccsbBroadEn_01982 EIF3C gene, encodes complete protein.
BT007335 - Homo sapiens eukaryotic translation initiation factor 3, subunit 8, 110kDa mRNA, complete cds.
DQ891632 - Synthetic construct clone IMAGE:100004262; FLH178813.01X; RZPDo839H05128D eukaryotic translation initiation factor 3, subunit 8, 110kDa (EIF3S8) gene, encodes complete protein.
DQ894822 - Synthetic construct Homo sapiens clone IMAGE:100009282; FLH178809.01L; RZPDo839H05127D eukaryotic translation initiation factor 3, subunit 8, 110kDa (EIF3S8) gene, encodes complete protein.
AB527254 - Synthetic construct DNA, clone: pF1KB5403, Homo sapiens EIF3S8 gene for eukaryotic translation initiation factor 3, subunit C, without stop codon, in Flexi system.
DQ590323 - Homo sapiens piRNA piR-57435, complete sequence.
DQ583273 - Homo sapiens piRNA piR-50385, complete sequence.
DQ575985 - Homo sapiens piRNA piR-44097, complete sequence.
JD022087 - Sequence 3111 from Patent EP1572962.
JD034920 - Sequence 15944 from Patent EP1572962.
BC107692 - Homo sapiens eukaryotic translation initiation factor 3, subunit C, mRNA (cDNA clone IMAGE:4296645), partial cds.
DQ572068 - Homo sapiens piRNA piR-40180, complete sequence.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q99613 (Reactome details) participates in the following event(s):

R-HSA-72676 eIF3 and eIF1A bind to the 40S subunit
R-HSA-72619 eIF2:GTP is hydrolyzed, eIFs are released
R-HSA-72691 Formation of the 43S pre-initiation complex
R-HSA-156808 Formation of translation initiation complexes yielding circularized Ceruloplasmin mRNA in a 'closed-loop' conformation
R-HSA-157849 Formation of translation initiation complexes containing mRNA that does not circularize
R-HSA-72621 Ribosomal scanning
R-HSA-72697 Start codon recognition
R-HSA-156823 Association of phospho-L13a with GAIT element of Ceruloplasmin mRNA
R-HSA-72689 Formation of a pool of free 40S subunits
R-HSA-72706 GTP hydrolysis and joining of the 60S ribosomal subunit
R-HSA-72695 Formation of the ternary complex, and subsequently, the 43S complex
R-HSA-72649 Translation initiation complex formation
R-HSA-72737 Cap-dependent Translation Initiation
R-HSA-72702 Ribosomal scanning and start codon recognition
R-HSA-156827 L13a-mediated translation
R-HSA-72662 Activation of the mRNA upon binding of the cap-binding complex and eIFs, and subsequent binding to 43S
R-HSA-72613 Eukaryotic Translation Initiation
R-HSA-72766 Translation
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: A8K7Z0, B2RXG3, EIF3CL, EIF3C_HUMAN, EIF3S8, NM_001037808, NP_001093131, O00215, Q99613, Q9BW98
UCSC ID: uc002dph.4
RefSeq Accession: NM_001037808
Protein: Q99613 (aka EIF3C_HUMAN)
CCDS: CCDS42136.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001037808.1
exon count: 21CDS single in 3' UTR: no RNA size: 3111
ORF size: 2745CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 5045.00frame shift in genome: no % Coverage: 99.49
has start codon: yes stop codon in genome: no # of Alignments: 2
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.