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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

TRNAU1AP Gene

protein-coding   GIFtS: 45
GCID: GC01P028879

TRNA Selenocysteine 1 Associated Protein 1

(Previous name: tRNA selenocysteine associated protein 1)
(Previous symbol: TRSPAP1)
  See related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
TRNA Selenocysteine 1 Associated Protein 11 2     PRO19022
TRSPAP11 2 3     RP4-669K10.42
TRNA Selenocysteine Associated Protein 11 2     TRNA Selenocysteine 1-Associated Protein 12
SECP432 3     TRNA Selenocysteine Associated Protein (SECP43)2
TRNA Selenocysteine-Associated Protein 12 3     SECp433

External Ids:    HGNC: 308131   Entrez Gene: 549522   Ensembl: ENSG000001800987   UniProtKB: Q9NX073   
ORGUL members:         
NONCODE14:n405881      

Export aliases for TRNAU1AP gene to outside databases

Previous GC identifers: GC01P028753 GC01P027133


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

GeneCards Summary for TRNAU1AP Gene: 
TRNAU1AP (tRNA selenocysteine 1 associated protein 1) is a protein-coding gene, and is affiliated with the lncRNA class. Diseases associated with TRNAU1AP include diverticulitis. GO annotations related to this gene include RNA binding and nucleotide binding. An important paralog of this gene is C6orf52.

UniProtKB/Swiss-Prot: TSAP1_HUMAN, Q9NX07
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)




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NC_018912.2  NT_004610.19  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TRNAU1AP gene promoter:
         Max1   SRF   SRF (504 AA)   C/EBPalpha   CHOP-10   FOXJ2 (long isoform)   FOXJ2   c-Myc   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTRNAU1AP promoter sequence
   Search SABiosciences Chromatin IP Primers for TRNAU1AP

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRNAU1AP


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 1p35.3   Ensembl cytogenetic band:  1p35.3   HGNC cytogenetic band: 1p35.3

TRNAU1AP Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRNAU1AP gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P028879:  view genomic region     (about GC identifiers)

Start:
28,879,529 bp from pter      End:
28,905,057 bp from pter
Size:
25,529 bases      Orientation:
plus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: TSAP1_HUMAN, Q9NX07 (See protein sequence)
Recommended Name: tRNA selenocysteine 1-associated protein 1  
Size: 287 amino acids; 32499 Da
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)
2 PDB 3D structures from and Proteopedia for TRNAU1AP:
2DHG (3D)        2DIV (3D)    
Secondary accessions: Q86SU7
Alternative splicing: 2 isoforms:  Q9NX07-1   Q9NX07-2   

Explore the universe of human proteins at neXtProt for TRNAU1AP: NX_Q9NX07

Explore proteomics data for TRNAU1AP at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q9NX07

  • TRNAU1AP Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    TRNAU1AP Protein Expression
    REFSEQ proteins: NP_060316.1  
    ENSEMBL proteins: 
     ENSP00000362936  

    Human Recombinant Protein Products for TRNAU1AP: 
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    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Browse Proteins at Cloud-Clone Corp. 

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus ISS--
    GO:0005737cytoplasm IEA--

    TRNAU1AP for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    RBM: RNA binding motif (RRM) containing

    2 InterPro protein domains:
     IPR000504 RRM_dom
     IPR012677 Nucleotide-bd_a/b_plait

    Graphical View of Domain Structure for InterPro Entry Q9NX07

    ProtoNet protein and cluster: Q9NX07

    1 Blocks protein domain: IPB000504 RNA-binding region RNP-1 (RNA recognition motif)

    UniProtKB/Swiss-Prot: TSAP1_HUMAN, Q9NX07
    Similarity: Belongs to the RRM TRSPAP family
    Similarity: Contains 2 RRM (RNA recognition motif) domains


    TRNAU1AP for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: TSAP1_HUMAN, Q9NX07
    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)

         Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166nucleotide binding IEA--
    GO:0003676nucleic acid binding ----
    GO:0003723RNA binding IEA--
    GO:0005515protein binding ----
         
    TRNAU1AP for ontologies           About GeneDecksing


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    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section

    SuperPaths for TRNAU1AP About                                                                                                See pathways by source

    SuperPathContained pathways About
    1Selenium Metabolism and Selenoproteins
    Selenium Metabolism and Selenoproteins


    1 BioSystems Pathway for TRNAU1AP
        Selenium Metabolism and Selenoproteins


    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TRNAU1AP

    STRING Interaction Network Preview (showing 5 interactants - click image to see 7)

    5/7 Interacting proteins for TRNAU1AP (ENSP000003629364) via UniProtKB, MINT, STRING, and/or I2D (see all 7)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CELA3BENSP000003383694STRING: ENSP00000338369
    ENSG00000228163ENSP000004062504STRING: ENSP00000406250
    SAMD13ENSP000003597074STRING: ENSP00000359707
    SRSF4ENSP000003629004STRING: ENSP00000362900
    ILF2ENSP000003550114STRING: ENSP00000355011
    About this table

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001514selenocysteine incorporation ISS--

    TRNAU1AP for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for TRNAU1AP (TSAP1)

    Search CenterWatch for drugs/clinical trials and news about TRNAU1AP / TSAP1

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for TRNAU1AP gene: 
    NM_017846.4  

    Unigene Cluster for TRNAU1AP:

    TRNA selenocysteine 1 associated protein 1
    Hs.533626  [show with all ESTs]
    Unigene Representative Sequence: NR_003109
    10 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000373830(uc001bqh.3 uc001bqi.3 uc010ofw.2) ENST00000495995
    ENST00000411406 ENST00000480930 ENST00000491577 ENST00000464880 ENST00000497790
    ENST00000495215 ENST00000464093 ENST00000484775
    miRNA
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    1 QIAGEN miScript miRNA Assays for microRNA that regulate TRNAU1AP:
    hsa-miR-2355-3p
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    Inhib. RNA
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    Additional mRNA sequence: 

    AF118082.2 AK000510.1 AK300162.1 AK309481.1 BC000680.2 BC035855.1 BC039879.1 NR_003109.1 

    14 DOTS entries:

    DT.414053  DT.95110782  DT.95356565  DT.91679343  DT.70102738  DT.91913057  DT.121464485  DT.97857420 
    DT.100777906  DT.102821916  DT.121464493  DT.91742134  DT.121464486  DT.75190795 

    24/123 AceView cDNA sequences (see all 123):

    AW196757 T60861 BQ014404 BM927394 CD674303 BQ063790 BC039879 BE466387 
    AI986407 AI133301 NM_017846 BQ066808 BM827528 BM768897 BQ428608 AI627422 
    AI040387 BC035855 BE672225 CB149361 AF118082 AW593402 CR606491 AW167579 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    TRNAU1AP expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GTGGCTCACT
    TRNAU1AP Expression
    About this image


    See TRNAU1AP Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TRNAU1AP

    SOURCE GeneReport for Unigene cluster: Hs.533626
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    In Situ
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of animals and fungi.

    Orthologs for TRNAU1AP gene from 8/16 species (see all 16)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Trnau1ap1 , 5 tRNA selenocysteine 1 associated protein 11, 5 92.57(n)1
    98.95(a)1
      4 (65.16 cM)5
    717871  NM_027925.31  NP_082201.21 
     1323117635 
    chicken
    (Gallus gallus)
    Aves TRSPAP11 tRNA selenocysteine associated protein 1 80.26(n)
    93.38(a)
      419597  XM_417743.3  XP_417743.3 
    lizard
    (Anolis carolinensis)
    Reptilia TRNAU1AP6
    tRNA selenocysteine 1 associated protein 1
    73(a)
    1 ↔ 1
    GL344047.1(103835-110360)
    African clawed frog
    (Xenopus laevis)
    Amphibia secp43-prov2 tRNA selenocysteine associated protein 79.12(n)    BC056124.1 
    zebrafish
    (Danio rerio)
    Actinopterygii wufa56b072 Danio rerio cDNA clone MGC77884 IMAGE6996630, complete more 73.42(n)    BC063993.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG154401 CG15440 51.04(n)
    46.52(a)
      33652  NM_134993.1  NP_608837.2 
    worm
    (Caenorhabditis elegans)
    Secernentea T07F10.36
    Protein T07F10.3
    17(a)
    1 → many
    V(12868026-12870035)
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes NAM8(YHR086W)4 RNA binding protein, component of the U1 snRNP protein; more   --   8(278153-279724) 856486  NP_011954.1 


    ENSEMBL Gene Tree for TRNAU1AP (if available)
    TreeFam Gene Tree for TRNAU1AP (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for TRNAU1AP gene
    C6orf522  

    TRNAU1AP for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/490 SNPs in TRNAU1AP are shown (see all 490)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1920258721,2
    --28877724(+) CTGGGC/TGCGAT 2 -- us2k10--------
    rs1850110981,2
    --28877804(+) TCGAGA/TCCAGC 2 -- us2k10--------
    rs1878195021,2
    --28877933(+) GGAGGC/TTAGAT 2 -- us2k10--------
    rs1915528791,2
    --28877972(+) ATTGCA/GCTCCA 2 -- us2k10--------
    rs1844240711,2
    --28878071(+) CATGAC/GCTTTG 2 -- us2k10--------
    rs1488307841,2
    --28878217(+) CTCCAA/CTGAAG 2 -- us2k10--------
    rs1897746461,2
    --28878297(+) AACAAC/TAGGGA 2 -- us2k10--------
    rs1434427321,2
    --28878308(+) GGTAGC/TGGAAC 2 -- us2k10--------
    rs1379769061,2
    C--28878411(+) GTGTT-/TGTGTGT 2 -- us2k10--------
    rs1929151091,2
    --28878625(+) ATTTTA/TAGTAG 2 -- us2k10--------

    HapMap Linkage Disequilibrium report for TRNAU1AP (28879529 - 28905057 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for TRNAU1AP:    About this table     
    Variant IDTypeSubtypePubMed ID
    dgv34e199CNV Deletion23128226

    SABiosciences Cancer Mutation PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    2 diseases for TRNAU1AP:    About MalaCards
    diverticulitis    


    TRNAU1AP for disorders           About GeneDecksing


    Export disorders for TRNAU1AP gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for TRNAU1AP gene, integrated from 9 sources (see all 11):
    (articles sorted by number of sources associating them with TRNAU1AP)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Supramolecular complexes mediate selenocysteine incorporation in vivo. (PubMed id 16508009)1, 2 Small-Howard A.... Berry M.J. (2006)
    2. Evidence for direct roles of two additional factors, SECp43 and soluble liver antigen, in the selenoprotein synthesis machinery. (PubMed id 16230358)1, 3 Xu X.M....Hatfield D.L. (2005)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    4. Identification of a protein component of a mammalian tRNA(Sec) complex implicated in the decoding of UGA as selenocysteine. (PubMed id 10606267)1, 3 Ding F. and Grabowski P.J. (1999)
    5. Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
    6. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    7. Ubiquitin ligase substrate identification through qua ntitative proteomics at both the protein and peptide levels. (PubMed id 21987572)1 Lee K.A....Doedens J.R. (2011)
    8. Dynamics of cullin-RING ubiquitin ligase network revea led by systematic quantitative proteomics. (PubMed id 21145461)1 Bennett E.J....Harper J.W. (2010)
    9. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)2 Gregory S.G.... Bentley D.R. (2006)
    10. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 54952 HGNC: 30813 AceView: SECP43 Ensembl:ENSG00000180098 euGenes: HUgn54952
    ECgene: TRNAU1AP H-InvDB: TRNAU1AP

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for TRNAU1AP Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for TRNAU1AP gene:
    Search GeneIP for patents involving TRNAU1AP

    GeneCards and IP:
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