Human Gene C2orf88 (uc002urt.3) Description and Page Index
  Description: Homo sapiens chromosome 2 open reading frame 88 (C2orf88), transcript variant 4, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr2:191,045,681-191,068,210 Size: 22,530 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg19 chr2:191,064,587-191,064,874 Size: 288 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-15

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:191,045,681-191,068,210)mRNA (may differ from genome)Protein (95 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
OMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: CB088_HUMAN
DESCRIPTION: RecName: Full=UPF0733 protein C2orf88;
SIMILARITY: Belongs to the UPF0733 family.

-  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: 11.26 RPKM in Testis
Total median expression: 121.87 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 -124.90338-0.370 Picture PostScript Text
3' UTR -828.843336-0.248 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
  Pfam Domains:
PF15127 - Small membrane A-kinase anchor protein

ModBase Predicted Comparative 3D Structure on Q9BSF0
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
  Molecular Function:
GO:0005515 protein binding
GO:0034237 protein kinase A regulatory subunit binding

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane


-  Descriptions from all associated GenBank mRNAs
  AK075168 - Homo sapiens cDNA FLJ90687 fis, clone PLACE1006093.
BC005083 - Homo sapiens hypothetical protein MGC13057, mRNA (cDNA clone MGC:13057 IMAGE:3632431), complete cds.
AK313395 - Homo sapiens cDNA, FLJ93930.
JD341896 - Sequence 322920 from Patent EP1572962.
JD100780 - Sequence 81804 from Patent EP1572962.
JD192771 - Sequence 173795 from Patent EP1572962.
JD555476 - Sequence 536500 from Patent EP1572962.
HQ447947 - Synthetic construct Homo sapiens clone IMAGE:100071309; CCSB005065_02 hypothetical protein MGC13057 (MGC13057) gene, encodes complete protein.
KJ899780 - Synthetic construct Homo sapiens clone ccsbBroadEn_09174 C2orf88 gene, encodes complete protein.
BX648070 - Homo sapiens mRNA; cDNA DKFZp686I15210 (from clone DKFZp686I15210).
JD533553 - Sequence 514577 from Patent EP1572962.
JD217279 - Sequence 198303 from Patent EP1572962.
JD241681 - Sequence 222705 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: CB088_HUMAN, D3DPI3, NM_032321, NP_115697, Q53TC7, Q9BSF0
UCSC ID: uc002urt.3
RefSeq Accession: NM_032321
Protein: Q9BSF0 (aka CB088_HUMAN)
CCDS: CCDS42792.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_032321.2
exon count: 2CDS single in 3' UTR: no RNA size: 3978
ORF size: 288CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 695.00frame shift in genome: no % Coverage: 99.60
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.