Human Gene TROVE2 (uc001gss.3) Description and Page Index
  Description: Homo sapiens TROVE domain family, member 2 (TROVE2), transcript variant 5, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:193,028,552-193,055,115 Size: 26,564 Total Exon Count: 9 Strand: +
Coding Region
   Position: hg19 chr1:193,038,185-193,053,861 Size: 15,677 Coding Exon Count: 8 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:193,028,552-193,055,115)mRNA (may differ from genome)Protein (538 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCLynxMGIneXtProtOMIM
PubMedStanford SOURCETreefamUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: RO60_HUMAN
DESCRIPTION: RecName: Full=60 kDa SS-A/Ro ribonucleoprotein; Short=60 kDa Ro protein; Short=60 kDa ribonucleoprotein Ro; Short=RoRNP; AltName: Full=Ro 60 kDa autoantigen; AltName: Full=Sjoegren syndrome antigen A2; AltName: Full=Sjoegren syndrome type A antigen; Short=SS-A; AltName: Full=TROVE domain family member 2;
FUNCTION: RNA-binding protein that binds to several small cytoplasmic RNA molecules known as Y RNAs. May stabilize these RNAs from degradation.
FUNCTION: May play roles in cilia formation and/or maintenance (By similarity).
SUBUNIT: Identified in a mRNP granule complex, at least composed of ACTB, ACTN4, DHX9, ERG, HNRNPA1, HNRNPA2B1, HNRNPAB, HNRNPD, HNRNPL, HNRNPR, HNRNPU, HSPA1, HSPA8, IGF2BP1, ILF2, ILF3, NCBP1, NCL, PABPC1, PABPC4, PABPN1, RPLP0, RPS3, RPS3A, RPS4X, RPS8, RPS9, SYNCRIP, TROVE2, YBX1 and untranslated mRNAs. Found in a complex with PUF60 and Y5 RNA. Interacts with RIP11.
INTERACTION: Q9UHX1:PUF60; NbExp=1; IntAct=EBI-1049168, EBI-1053259;
SUBCELLULAR LOCATION: Cytoplasm. Note=Localized in cytoplasmic mRNP granules containing untranslated mRNAs.
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR.
MISCELLANEOUS: Antibodies against normal cellular SSA2 protein are found in sera from patients with systemic lupus erythematosus (SLE).
SIMILARITY: Belongs to the Ro 60 kDa family.
SIMILARITY: Contains 1 TROVE domain.

-  MalaCards Disease Associations
  MalaCards Gene Search: TROVE2
Diseases sorted by gene-association score: sjogren's syndrome (16), heart block, congenital (10), lupus erythematosus (10), cutaneous lupus erythematosus (10), systemic lupus erythematosus (9), cogan syndrome (6), xerophthalmia (5), salivary gland disease (4), hypersensitivity reaction type ii disease (2)

-  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: 7.59 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 216.17 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 -171.50376-0.456 Picture PostScript Text
3' UTR -278.721254-0.222 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
IPR008858 - TROVE
IPR018698 - VWA-like_dom

Pfam Domains:
PF05731 - TROVE domain

ModBase Predicted Comparative 3D Structure on P10155
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:0003723 RNA binding
GO:0030620 U2 snRNA binding
GO:0046872 metal ion binding

Biological Process:
GO:0002520 immune system development
GO:0006383 transcription from RNA polymerase III promoter
GO:0007224 smoothened signaling pathway
GO:0009411 response to UV
GO:0030030 cell projection organization
GO:0060271 cilium assembly

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:1990904 ribonucleoprotein complex


-  Descriptions from all associated GenBank mRNAs
  CR936683 - Homo sapiens mRNA; cDNA DKFZp781B1010 (from clone DKFZp781B1010).
LF205380 - JP 2014500723-A/12883: Polycomb-Associated Non-Coding RNAs.
AK024044 - Homo sapiens cDNA FLJ13982 fis, clone Y79AA1001711, highly similar to 60 kDa SS-A/Ro ribonucleoprotein.
AK314594 - Homo sapiens cDNA, FLJ95429, highly similar to Homo sapiens Sjogren syndrome antigen A2 (60kDa, ribonucleoprotein autoantigen SS-A/Ro) (SSA2), mRNA.
AH003763 - Homo sapiens Ro60 protein gene [human, mRNA Partial, 303 nt 2 segments].
LF212847 - JP 2014500723-A/20350: Polycomb-Associated Non-Coding RNAs.
BC036658 - Homo sapiens TROVE domain family, member 2, mRNA (cDNA clone MGC:33170 IMAGE:4821776), complete cds.
AY205314 - Homo sapiens gastric cancer multi-drug resistance protein variant mRNA, complete cds.
AY205315 - Homo sapiens gastric cancer multi-drug resistance protein variant mRNA, complete cds.
M25077 - Human SS-A/Ro ribonucleoprotein autoantigen 60 kd subunit mRNA, complete cds.
AK130037 - Homo sapiens cDNA FLJ26527 fis, clone KDN08479, highly similar to 60-kDa SS-A/Ro ribonucleoprotein.
J04137 - Human 60-kdal ribonucleoprotein (Ro) mRNA, complete cds.
KJ897606 - Synthetic construct Homo sapiens clone ccsbBroadEn_07000 TROVE2 gene, encodes complete protein.
AB528469 - Synthetic construct DNA, clone: pF1KB9957, Homo sapiens TROVE2 gene for TROVE domain family, member 2, without stop codon, in Flexi system.
DQ894716 - Synthetic construct Homo sapiens clone IMAGE:100009176; FLH177723.01L; RZPDo839D05125D TROVE domain family, member 2 (TROVE2) gene, encodes complete protein.
DQ891526 - Synthetic construct clone IMAGE:100004156; FLH177727.01X; RZPDo839D05126D TROVE domain family, member 2 (TROVE2) gene, encodes complete protein.
LF319859 - JP 2014500723-A/127362: Polycomb-Associated Non-Coding RNAs.
LF319855 - JP 2014500723-A/127358: Polycomb-Associated Non-Coding RNAs.
LF319854 - JP 2014500723-A/127357: Polycomb-Associated Non-Coding RNAs.
JD239598 - Sequence 220622 from Patent EP1572962.
JD103785 - Sequence 84809 from Patent EP1572962.
LF319853 - JP 2014500723-A/127356: Polycomb-Associated Non-Coding RNAs.
JD490990 - Sequence 472014 from Patent EP1572962.
LF319852 - JP 2014500723-A/127355: Polycomb-Associated Non-Coding RNAs.
JD313524 - Sequence 294548 from Patent EP1572962.
LF319851 - JP 2014500723-A/127354: Polycomb-Associated Non-Coding RNAs.
JD232884 - Sequence 213908 from Patent EP1572962.
JD193522 - Sequence 174546 from Patent EP1572962.
MA440957 - JP 2018138019-A/12883: Polycomb-Associated Non-Coding RNAs.
MA448424 - JP 2018138019-A/20350: Polycomb-Associated Non-Coding RNAs.
MA555436 - JP 2018138019-A/127362: Polycomb-Associated Non-Coding RNAs.
MA555432 - JP 2018138019-A/127358: Polycomb-Associated Non-Coding RNAs.
MA555431 - JP 2018138019-A/127357: Polycomb-Associated Non-Coding RNAs.
MA555430 - JP 2018138019-A/127356: Polycomb-Associated Non-Coding RNAs.
MA555429 - JP 2018138019-A/127355: Polycomb-Associated Non-Coding RNAs.
MA555428 - JP 2018138019-A/127354: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa05322 - Systemic lupus erythematosus

-  Other Names for This Gene
  Alternate Gene Symbols: B2RBB9, NM_001173524, NP_004591, P10155, Q92787, Q9H1W6, RO60, RO60_HUMAN, SSA2
UCSC ID: uc001gss.3
RefSeq Accession: NM_001173524
Protein: P10155 (aka RO60_HUMAN)
CCDS: CCDS1379.1, CCDS41449.1, CCDS41450.2, CCDS53451.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001173524.1
exon count: 9CDS single in 3' UTR: no RNA size: 3257
ORF size: 1617CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2928.00frame shift in genome: no % Coverage: 99.69
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: yes # AT/AC introns 0
selenocysteine: no end bleed into intron: 1287# 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.