Human Gene C1orf43 (uc001fei.2) Description and Page Index
  Description: Homo sapiens chromosome 1 open reading frame 43 (C1orf43), transcript variant 3, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:154,179,183-154,193,273 Size: 14,091 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr1:154,179,929-154,192,883 Size: 12,955 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:154,179,183-154,193,273)mRNA (may differ from genome)Protein (253 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: CA043_HUMAN
DESCRIPTION: RecName: Full=Uncharacterized protein C1orf43; AltName: Full=Hepatitis C virus NS5A-transactivated protein 4; Short=HCV NS5A-transactivated protein 4; AltName: Full=Protein NICE-3; AltName: Full=S863-3;
SUBCELLULAR LOCATION: Membrane; Single-pass membrane protein (Potential).
SEQUENCE CAUTION: Sequence=CAH71276.1; Type=Erroneous gene model prediction;

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 89.76 RPKM in Muscle - Skeletal
Total median expression: 2808.91 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 -171.50390-0.440 Picture PostScript Text
3' UTR -212.01746-0.284 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
IPR013328 - DH_multihelical
IPR010876 - NICE-3_prd

Pfam Domains:
PF07406 - NICE-3 protein

ModBase Predicted Comparative 3D Structure on Q9BWL3
FrontTopSide
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 BrowserGenome BrowserGenome BrowserNo orthologNo ortholog
 Gene Details Gene Details  
 Gene Sorter Gene Sorter  
 RGDEnsemblFlyBase  
 Protein SequenceProtein SequenceProtein Sequence  
 AlignmentAlignmentAlignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Cellular Component:
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AF109185 - Homo sapiens S863-3 mRNA, complete cds.
BC001377 - Homo sapiens chromosome 1 open reading frame 43, mRNA (cDNA clone MGC:1147 IMAGE:3051048), complete cds.
AF077036 - Homo sapiens HSPC012 mRNA, complete cds.
AJ243665 - Homo sapiens partial mRNA for NICE-3 protein, clone 3038j13.
BC014391 - Homo sapiens chromosome 1 open reading frame 43, mRNA (cDNA clone MGC:1148 IMAGE:3544590), complete cds.
AJ243664 - Homo sapiens mRNA for NICE-3 protein, clone 3038m19.
BC000152 - Homo sapiens chromosome 1 open reading frame 43, mRNA (cDNA clone MGC:5332 IMAGE:2901006), complete cds.
AL117463 - Homo sapiens mRNA; cDNA DKFZp586G1722 (from clone DKFZp586G1722).
AJ243663 - Homo sapiens mRNA for NICE-3 protein, clone 1023j12.
BC006514 - Homo sapiens chromosome 1 open reading frame 43, mRNA (cDNA clone MGC:2729 IMAGE:2822327), complete cds.
E08543 - cDNA encoding novel protein produced by glioblastoma.
BC088353 - Homo sapiens chromosome 1 open reading frame 43, mRNA (cDNA clone MGC:111001 IMAGE:6164281), complete cds.
JD206944 - Sequence 187968 from Patent EP1572962.
JD020784 - Sequence 1808 from Patent EP1572962.
JD531784 - Sequence 512808 from Patent EP1572962.
JD314911 - Sequence 295935 from Patent EP1572962.
JD033260 - Sequence 14284 from Patent EP1572962.
JD519958 - Sequence 500982 from Patent EP1572962.
JD048337 - Sequence 29361 from Patent EP1572962.
JD339333 - Sequence 320357 from Patent EP1572962.
AF529365 - Homo sapiens NS5ATP4 (NS5ATP4) mRNA, complete cds.
DQ908899 - Homo sapiens NS5ATP4A (NS5ATP4A) mRNA, complete cds.
CU674064 - Synthetic construct Homo sapiens gateway clone IMAGE:100016900 5' read C1orf43 mRNA.
HQ447133 - Synthetic construct Homo sapiens clone IMAGE:100070421; CCSB000047_01 chromosome 1 open reading frame 43 (C1orf43) gene, encodes complete protein.
KJ893489 - Synthetic construct Homo sapiens clone ccsbBroadEn_02883 C1orf43 gene, encodes complete protein.
E08542 - cDNA encoding novel protein produced by glioblastoma.
CR457131 - Homo sapiens full open reading frame cDNA clone RZPDo834H117D for gene NICE-3, NICE-3 protein; complete cds, incl. stopcodon.
AK093707 - Homo sapiens cDNA FLJ36388 fis, clone THYMU2008910.
AK290583 - Homo sapiens cDNA FLJ77067 complete cds.
BC008306 - Homo sapiens chromosome 1 open reading frame 43, mRNA (cDNA clone MGC:15205 IMAGE:3502049), complete cds.
KJ902389 - Synthetic construct Homo sapiens clone ccsbBroadEn_11783 C1orf43 gene, encodes complete protein.
CU678913 - Synthetic construct Homo sapiens gateway clone IMAGE:100018002 5' read C1orf43 mRNA.
JD039495 - Sequence 20519 from Patent EP1572962.
JD071692 - Sequence 52716 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A8K3G8, CA043_HUMAN, D3DV72, D3DV74, HSPC012, NICE3, NM_001098616, NP_001092086, NS5ATP4, Q5M801, Q5VU73, Q5VU83, Q96HP7, Q9BWL3, Q9UFU2, Q9UGL7, Q9UGL8, Q9Y2R6
UCSC ID: uc001fei.2
RefSeq Accession: NM_001098616
Protein: Q9BWL3 (aka CA043_HUMAN)
CCDS: CCDS41404.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001098616.1
exon count: 7CDS single in 3' UTR: no RNA size: 1909
ORF size: 762CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1427.00frame shift in genome: no % Coverage: 99.42
has start codon: yes stop codon in genome: no # of Alignments: 1
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.