Human Gene TRNAU1AP (uc001bqi.3) Description and Page Index
  Description: Homo sapiens tRNA selenocysteine 1 associated protein 1 (TRNAU1AP), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:28,879,529-28,905,057 Size: 25,529 Total Exon Count: 9 Strand: +
Coding Region
   Position: hg19 chr1:28,879,623-28,904,148 Size: 24,526 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:28,879,529-28,905,057)mRNA (may differ from genome)Protein (287 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: TSAP1_HUMAN
DESCRIPTION: RecName: Full=tRNA selenocysteine 1-associated protein 1; AltName: Full=SECp43; AltName: Full=tRNA selenocysteine-associated protein 1;
FUNCTION: Involved in the early steps of selenocysteine biosynthesis and tRNA(Sec) charging to the later steps resulting in the cotranslational incorporation of selenocysteine into selenoproteins. Stabilizes the SECISBP2, EEFSEC and tRNA(Sec) complex. May be involved in the methylation of tRNA(Sec). Enhances efficiency of selenoproteins synthesis (By similarity).
SUBUNIT: Component of the tRNA(Sec) complex composed at least of EEFSEC, SECISBP2, SEPHS1, SEPSECS, TRNAU1AP and tRNA(Sec). Found in a complex with tRNA(Sec). Interacts with SEPSECS. Associates with mRNP and/or polysomes (By similarity). Found in a complex with EEFSEC, SECISBP2, TRNAU1AP and tRNA(Sec).
SUBCELLULAR LOCATION: Nucleus (By similarity). Cytoplasm (By similarity). Note=Abundant in the nucleus (By similarity).
SIMILARITY: Belongs to the RRM TRSPAP family.
SIMILARITY: Contains 2 RRM (RNA recognition motif) domains.

-  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: 6.56 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 202.23 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 -39.3094-0.418 Picture PostScript Text
3' UTR -269.70909-0.297 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
IPR012677 - Nucleotide-bd_a/b_plait
IPR000504 - RRM_dom

Pfam Domains:
PF00076 - RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)

SCOP Domains:
54928 - RNA-binding domain, RBD

Protein Data Bank (PDB) 3-D Structure
MuPIT help

2DHG
- NMR MuPIT

2DIV
- NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q9NX07
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 orthologGenome BrowserGenome BrowserGenome BrowserGenome Browser
Gene Details  Gene DetailsGene DetailsGene Details
Gene Sorter  Gene SorterGene SorterGene Sorter
  EnsemblFlyBaseWormBaseSGD
  Protein SequenceProtein SequenceProtein SequenceProtein Sequence
  AlignmentAlignmentAlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0003723 RNA binding

Biological Process:
GO:0001514 selenocysteine incorporation
GO:0006412 translation

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AK309481 - Homo sapiens cDNA, FLJ99522.
AK000510 - Homo sapiens cDNA FLJ20503 fis, clone KAT09346.
AK300162 - Homo sapiens cDNA FLJ52201 complete cds, moderately similar to Rattus norvegicus tRNA selenocysteine associated protein (Secp43), mRNA.
AK023555 - Homo sapiens cDNA FLJ13493 fis, clone PLACE1004336.
BC000680 - Homo sapiens tRNA selenocysteine 1 associated protein 1, mRNA (cDNA clone MGC:1032 IMAGE:3349210), complete cds.
BC039879 - Homo sapiens tRNA selenocysteine 1 associated protein 1, mRNA (cDNA clone MGC:46069 IMAGE:5769935), complete cds.
BC035855 - Homo sapiens tRNA selenocysteine associated protein 1, mRNA (cDNA clone IMAGE:5769975).
KJ894101 - Synthetic construct Homo sapiens clone ccsbBroadEn_03495 TRNAU1AP gene, encodes complete protein.
AB528915 - Synthetic construct DNA, clone: pF1KE0701, Homo sapiens TRSPAP1 gene for tRNA selenocysteine 1 associated protein 1, without stop codon, in Flexi system.
CU691790 - Synthetic construct Homo sapiens gateway clone IMAGE:100016745 5' read TRSPAP1 mRNA.
KJ902725 - Synthetic construct Homo sapiens clone ccsbBroadEn_12119 TRNAU1AP gene, encodes complete protein.
JD501752 - Sequence 482776 from Patent EP1572962.
JD085046 - Sequence 66070 from Patent EP1572962.
JD235630 - Sequence 216654 from Patent EP1572962.
JD294302 - Sequence 275326 from Patent EP1572962.
JD145794 - Sequence 126818 from Patent EP1572962.
JD232938 - Sequence 213962 from Patent EP1572962.
JD044753 - Sequence 25777 from Patent EP1572962.
JD431181 - Sequence 412205 from Patent EP1572962.
JD291553 - Sequence 272577 from Patent EP1572962.
JD565660 - Sequence 546684 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_017846, NP_060316, Q86SU7, Q9NX07, SECP43, TRSPAP1, TSAP1_HUMAN
UCSC ID: uc001bqi.3
RefSeq Accession: NM_017846
Protein: Q9NX07 (aka TSAP1_HUMAN)
CCDS: CCDS324.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_017846.4
exon count: 9CDS single in 3' UTR: no RNA size: 1884
ORF size: 864CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1725.00frame shift in genome: no % Coverage: 99.10
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.