Human Gene C1orf50 (uc001cia.4) Description and Page Index
  Description: Homo sapiens chromosome 1 open reading frame 50 (C1orf50), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:43,232,916-43,241,413 Size: 8,498 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr1:43,232,983-43,241,065 Size: 8,083 Coding Exon Count: 5 

Page IndexSequence and LinksCTDGene AllelesRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther Names
Model InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr1:43,232,916-43,241,413)mRNA (may differ from genome)Protein (199 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
neXtProtPubMedStanford SOURCETreefamUniProtKB

-  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: 7.13 RPKM in Testis
Total median expression: 147.77 RPKM

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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -29.7067-0.443 Picture PostScript Text
3' UTR -89.64348-0.258 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
IPR019534 - DUF2452

Pfam Domains:
PF10504 - Protein of unknown function (DUF2452)

ModBase Predicted Comparative 3D Structure on Q9BV19
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 orthologGenome BrowserGenome BrowserGenome BrowserNo ortholog
Gene Details  Gene DetailsGene Details 
Gene Sorter  Gene SorterGene Sorter 
  Protein SequenceProtein SequenceProtein Sequence 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0042802 identical protein binding

-  Descriptions from all associated GenBank mRNAs
  AK299874 - Homo sapiens cDNA FLJ52234 complete cds.
BC001508 - Homo sapiens chromosome 1 open reading frame 50, mRNA (cDNA clone MGC:2448 IMAGE:2959109), complete cds.
BC001711 - Homo sapiens chromosome 1 open reading frame 50, mRNA (cDNA clone MGC:955 IMAGE:3543543), complete cds.
JD325303 - Sequence 306327 from Patent EP1572962.
JD076325 - Sequence 57349 from Patent EP1572962.
JF432464 - Synthetic construct Homo sapiens clone IMAGE:100073682 chromosome 1 open reading frame 50 (C1orf50) gene, encodes complete protein.
KJ899525 - Synthetic construct Homo sapiens clone ccsbBroadEn_08919 C1orf50 gene, encodes complete protein.
JD317885 - Sequence 298909 from Patent EP1572962.
JD171242 - Sequence 152266 from Patent EP1572962.
JD327553 - Sequence 308577 from Patent EP1572962.
JD326779 - Sequence 307803 from Patent EP1572962.
JD163791 - Sequence 144815 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: CA050_HUMAN, NM_024097, NP_077002, Q9BV19
UCSC ID: uc001cia.4
RefSeq Accession: NM_024097
Protein: Q9BV19 (aka CA050_HUMAN)

-  Gene Model Information
category: coding nonsense-mediated-decay: no RNA accession: NM_024097.3
exon count: 5CDS single in 3' UTR: no RNA size: 1036
ORF size: 600CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1376.00frame shift in genome: no % Coverage: 97.97
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: 220# 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.