Human Gene C1orf162 (uc001ebe.3) Description and Page Index
  Description: Homo sapiens chromosome 1 open reading frame 162 (C1orf162), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:112,016,604-112,021,134 Size: 4,531 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg19 chr1:112,018,651-112,020,745 Size: 2,095 Coding Exon Count: 5 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:112,016,604-112,021,134)mRNA (may differ from genome)Protein (155 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
PubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: CA162_HUMAN
DESCRIPTION: RecName: Full=Transmembrane protein C1orf162;
SUBCELLULAR LOCATION: Membrane; Single-pass membrane protein (Potential).

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): C1orf162
CDC HuGE Published Literature: C1orf162
Positive Disease Associations: Hemoglobin A, Glycosylated
Related Studies:
  1. Hemoglobin A, Glycosylated
    Andrew D Paterson et al. Diabetes 2010, A genome-wide association study identifies a novel major locus for glycemic control in type 1 diabetes, as measured by both A1C and glucose., Diabetes. [PubMed 19875614]
    A major locus for A1C and glucose in individuals with diabetes is near SORCS1. This may influence the design and analysis of genetic studies attempting to identify risk factors for long-term diabetic complications.

-  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: 83.26 RPKM in Whole Blood
Total median expression: 354.11 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 -13.6060-0.227 Picture PostScript Text
3' UTR -99.10389-0.255 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
  ModBase Predicted Comparative 3D Structure on Q8NEQ5
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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

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


-  Descriptions from all associated GenBank mRNAs
  KJ895447 - Synthetic construct Homo sapiens clone ccsbBroadEn_04841 C1orf162 gene, encodes complete protein.
BC017973 - Homo sapiens chromosome 1 open reading frame 162, mRNA (cDNA clone MGC:24133 IMAGE:4693393), complete cds.
JD327902 - Sequence 308926 from Patent EP1572962.
AK123160 - Homo sapiens cDNA FLJ41165 fis, clone BRACE2040640.
CU676132 - Synthetic construct Homo sapiens gateway clone IMAGE:100022063 5' read C1orf162 mRNA.
DQ895167 - Synthetic construct Homo sapiens clone IMAGE:100009627; FLH182004.01L; RZPDo839B08137D chromosome 1 open reading frame 162 (C1orf162) gene, encodes complete protein.
DQ891976 - Synthetic construct clone IMAGE:100004606; FLH182008.01X; RZPDo839B08138D chromosome 1 open reading frame 162 (C1orf162) gene, encodes complete protein.
JD307754 - Sequence 288778 from Patent EP1572962.
JD240754 - Sequence 221778 from Patent EP1572962.
JD445314 - Sequence 426338 from Patent EP1572962.
JD524964 - Sequence 505988 from Patent EP1572962.
JD115456 - Sequence 96480 from Patent EP1572962.
JD507234 - Sequence 488258 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: CA162_HUMAN, NM_174896, NP_777556, Q5QNZ1, Q8NEQ5
UCSC ID: uc001ebe.3
RefSeq Accession: NM_174896
Protein: Q8NEQ5 (aka CA162_HUMAN)
CCDS: CCDS837.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_174896.2
exon count: 6CDS single in 3' UTR: no RNA size: 946
ORF size: 468CDS single in intron: no Alignment % ID: 99.78
txCdsPredict score: 1070.00frame shift in genome: no % Coverage: 96.93
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.