Human Gene OTUD4 (uc003ika.4) Description and Page Index
  Description: Homo sapiens OTU domain containing 4 (OTUD4), transcript variant 3, mRNA.
RefSeq Summary (NM_001102653): Alternatively spliced transcript variants have been found for this gene. The smaller protein isoform encoded by the shorter transcript variant is found only in HIV-1 infected cells. [provided by RefSeq, Jul 2010]. Sequence Note: This RefSeq record was created from transcript and genomic sequence data because no single transcript was available for the full length of the gene. The extent of this transcript is supported by transcript alignments. ##Evidence-Data-START## Transcript exon combination :: AK302581.1 [ECO:0000332] RNAseq introns :: mixed/partial sample support SAMEA1965299, SAMEA1966682 [ECO:0000350] ##Evidence-Data-END##
Transcript (Including UTRs)
   Position: hg19 chr4:146,054,802-146,100,832 Size: 46,031 Total Exon Count: 21 Strand: -
Coding Region
   Position: hg19 chr4:146,058,582-146,095,860 Size: 37,279 Coding Exon Count: 20 

Page IndexSequence and LinksUniProtKB CommentsMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr4:146,054,802-146,100,832)mRNA (may differ from genome)Protein (1049 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
OMIMPubMedStanford SOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: G3V0I6_HUMAN
DESCRIPTION: SubName: Full=OTU domain containing 4, isoform CRA_f; SubName: Full=OTU domain-containing protein 4;
SIMILARITY: Contains 1 OTU domain.

-  MalaCards Disease Associations
  MalaCards Gene Search: OTUD4
Diseases sorted by gene-association score: hypogonadotropism (10), hiv-1 (5)

-  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: 20.01 RPKM in Testis
Total median expression: 364.20 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 -38.70138-0.280 Picture PostScript Text
3' UTR -959.223780-0.254 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
IPR003323 - OTU

Pfam Domains:
PF02338 - OTU-like cysteine protease

SCOP Domains:
54001 - Cysteine proteinases

ModBase Predicted Comparative 3D Structure on G3V0I6
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 BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  AB028969 - Homo sapiens mRNA for KIAA1046 protein, partial cds.
JD286255 - Sequence 267279 from Patent EP1572962.
JD531019 - Sequence 512043 from Patent EP1572962.
JD103289 - Sequence 84313 from Patent EP1572962.
JD250706 - Sequence 231730 from Patent EP1572962.
JD228866 - Sequence 209890 from Patent EP1572962.
JD389683 - Sequence 370707 from Patent EP1572962.
JD110771 - Sequence 91795 from Patent EP1572962.
JD524476 - Sequence 505500 from Patent EP1572962.
JD248889 - Sequence 229913 from Patent EP1572962.
JD273520 - Sequence 254544 from Patent EP1572962.
JD090724 - Sequence 71748 from Patent EP1572962.
JD222906 - Sequence 203930 from Patent EP1572962.
JD490671 - Sequence 471695 from Patent EP1572962.
JD510682 - Sequence 491706 from Patent EP1572962.
JD041811 - Sequence 22835 from Patent EP1572962.
JD086771 - Sequence 67795 from Patent EP1572962.
JD486602 - Sequence 467626 from Patent EP1572962.
JD268487 - Sequence 249511 from Patent EP1572962.
JD295810 - Sequence 276834 from Patent EP1572962.
JD269763 - Sequence 250787 from Patent EP1572962.
JD105021 - Sequence 86045 from Patent EP1572962.
JD120479 - Sequence 101503 from Patent EP1572962.
JD316361 - Sequence 297385 from Patent EP1572962.
BC057242 - Homo sapiens OTU domain containing 4, mRNA (cDNA clone IMAGE:4276528), partial cds.
JD312881 - Sequence 293905 from Patent EP1572962.
AK302581 - Homo sapiens cDNA FLJ56410 complete cds, highly similar to Homo sapiens OTU domain containing 4 (OTUD4), transcript variant 1, mRNA.
BC118572 - Homo sapiens OTU domain containing 4, mRNA (cDNA clone MGC:126484 IMAGE:40036249), complete cds.
BC118653 - Homo sapiens OTU domain containing 4, mRNA (cDNA clone MGC:126483 IMAGE:40036248), complete cds.
JD104507 - Sequence 85531 from Patent EP1572962.
AL137460 - Homo sapiens mRNA; cDNA DKFZp434I0721 (from clone DKFZp434I0721).
AK056597 - Homo sapiens cDNA FLJ32035 fis, clone NTONG2000363.
BC020682 - Homo sapiens OTU domain containing 4, mRNA (cDNA clone IMAGE:4804803), partial cds.
X68242 - H.sapiens mRNA for Hin-1.
JD112940 - Sequence 93964 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: G3V0I6, G3V0I6_HUMAN, hCG_2026279, NM_001102653, NP_001096123
UCSC ID: uc003ika.4
RefSeq Accession: NM_001102653
Protein: G3V0I6 CCDS: CCDS47139.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001102653.1
exon count: 21CDS single in 3' UTR: no RNA size: 7068
ORF size: 3150CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 6468.00frame shift in genome: no % Coverage: 100.00
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.