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Aliases for CTU2 Gene

Aliases for CTU2 Gene

  • Cytosolic Thiouridylase Subunit 2 2 3 4 5
  • C16orf84 3 4
  • NCS2 3 4
  • Cytosolic Thiouridylase Subunit 2 Homolog (S. Pombe) 2
  • Cytosolic Thiouridylase Subunit 2 Homolog 3
  • Cytoplasmic TRNA 2-Thiolation Protein 2 3
  • Chromosome 16 Open Reading Frame 84 2
  • UPF0432 3

External Ids for CTU2 Gene

Previous HGNC Symbols for CTU2 Gene

  • C16orf84

Previous GeneCards Identifiers for CTU2 Gene

  • GC16P087301
  • GC16P088773
  • GC16P074467

Summaries for CTU2 Gene

Entrez Gene Summary for CTU2 Gene

  • This gene encodes a protein which is involved in the post-transcriptional modification of transfer RNAs (tRNAs). The encoded protein plays a role in thiolation of uridine residue present at the wobble position in a subset of tRNAs, resulting in enhanced codon reading accuracy. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jan 2016]

GeneCards Summary for CTU2 Gene

CTU2 (Cytosolic Thiouridylase Subunit 2) is a Protein Coding gene. Diseases associated with CTU2 include Phobia, Specific and Exotropia. Among its related pathways are Sulfur relay system and Gene Expression. GO annotations related to this gene include tRNA binding and nucleotidyltransferase activity.

UniProtKB/Swiss-Prot for CTU2 Gene

  • Plays a central role in 2-thiolation of mcm(5)S(2)U at tRNA wobble positions of tRNA(Lys), tRNA(Glu) and tRNA(Gln). May act by forming a heterodimer with CTU1/ATPBD3 that ligates sulfur from thiocarboxylated URM1 onto the uridine of tRNAs at wobble position.

Gene Wiki entry for CTU2 Gene

Additional gene information for CTU2 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CTU2 Gene

Genomics for CTU2 Gene

Regulatory Elements for CTU2 Gene

Enhancers for CTU2 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH16H089558 1.7 Ensembl ENCODE dbSUPER 19.1 +856.2 856163 7 MLX DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC SSRP1 ZNF610 GLIS1 ANKRD11 AFG3L1P TCF25 ZC3H18 ENSG00000259877 ENSG00000268218 RPL13 LOC101927863 MC1R ACSF3
GH16H088809 1.4 ENCODE dbSUPER 20.3 +104.8 104815 4 HNRNPUL1 HDGF PKNOX1 MLX ARNT ZFP64 ARID4B SIN3A FEZF1 DMAP1 ENSG00000259877 ANKRD11 ZC3H18 SNORD68 LOC101927863 GALNS ENSG00000268218 RPL13 ENSG00000260121 ACSF3
GH16H089480 2.1 FANTOM5 Ensembl ENCODE dbSUPER 11.3 +780.3 780291 12 HDGF PKNOX1 MLX ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 ZBTB7B SPG7 ZNF778 ZC3H18 AFG3L1P MC1R ANKRD11 ENSG00000259877 RPL13 TCF25 RNU6-430P
GH16H088698 1.8 FANTOM5 ENCODE dbSUPER 12.6 -3.6 -3632 9 HDGF PKNOX1 MLX ARNT ARID4B SIN3A DMAP1 YY1 CBX5 ZNF143 RNF166 ZC3H18 ANKRD11 CTU2 ENSG00000268218 LINC00304 SNAI3-AS1 ENSG00000259877 BANP SNAI3
GH16H087805 2 FANTOM5 Ensembl ENCODE dbSUPER 11.3 -898.0 -898036 5 PKNOX1 ARID4B SIN3A DMAP1 ZNF766 ZNF143 FOS MXD4 JUNB REST SLC7A5 LOC101928659 CTU2 ZCCHC14 RNF166 ENSG00000260177 MIR6775
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around CTU2 on UCSC Golden Path with GeneCards custom track

Promoters for CTU2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000089566 -263 1601 HDGF MLX ARNT ARID4B SIN3A DMAP1 CBX5 ZNF143 ZNF207 FOS

Genomic Location for CTU2 Gene

Chromosome:
16
Start:
88,706,463 bp from pter
End:
88,715,386 bp from pter
Size:
8,924 bases
Orientation:
Plus strand

Genomic View for CTU2 Gene

Genes around CTU2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CTU2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CTU2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CTU2 Gene

Proteins for CTU2 Gene

  • Protein details for CTU2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q2VPK5-CTU2_HUMAN
    Recommended name:
    Cytoplasmic tRNA 2-thiolation protein 2
    Protein Accession:
    Q2VPK5
    Secondary Accessions:
    • B2RXK0
    • Q0P511
    • Q66K78
    • Q6P4C8
    • Q86SV4

    Protein attributes for CTU2 Gene

    Size:
    515 amino acids
    Molecular mass:
    56107 Da
    Quaternary structure:
    • Component of a complex at least composed of URM1, CTU2/NCS2 and CTU1/ATPBD3.

    Alternative splice isoforms for CTU2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CTU2 Gene

Post-translational modifications for CTU2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for CTU2 Gene

Domains & Families for CTU2 Gene

Gene Families for CTU2 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for CTU2 Gene

Suggested Antigen Peptide Sequences for CTU2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q2VPK5

UniProtKB/Swiss-Prot:

CTU2_HUMAN :
  • Belongs to the CTU2/NCS2 family.
Family:
  • Belongs to the CTU2/NCS2 family.
genes like me logo Genes that share domains with CTU2: view

Function for CTU2 Gene

Molecular function for CTU2 Gene

UniProtKB/Swiss-Prot Function:
Plays a central role in 2-thiolation of mcm(5)S(2)U at tRNA wobble positions of tRNA(Lys), tRNA(Glu) and tRNA(Gln). May act by forming a heterodimer with CTU1/ATPBD3 that ligates sulfur from thiocarboxylated URM1 onto the uridine of tRNAs at wobble position.

Phenotypes From GWAS Catalog for CTU2 Gene

Gene Ontology (GO) - Molecular Function for CTU2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000049 tRNA binding IEA --
GO:0005515 protein binding IPI 19017811
GO:0016779 nucleotidyltransferase activity IEA --
GO:0016783 sulfurtransferase activity IBA --
genes like me logo Genes that share ontologies with CTU2: view
genes like me logo Genes that share phenotypes with CTU2: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for CTU2
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for CTU2 Gene

Localization for CTU2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CTU2 Gene

Cytoplasm.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CTU2 gene
Compartment Confidence
cytosol 5
mitochondrion 3
nucleus 3
peroxisome 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for CTU2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol IBA,TAS --
GO:0043234 protein complex IDA 19017811
genes like me logo Genes that share ontologies with CTU2: view

Pathways & Interactions for CTU2 Gene

genes like me logo Genes that share pathways with CTU2: view

Pathways by source for CTU2 Gene

1 KEGG pathway for CTU2 Gene

UniProtKB/Swiss-Prot Q2VPK5-CTU2_HUMAN

  • Pathway: tRNA modification; 5-methoxycarbonylmethyl-2-thiouridine-tRNA biosynthesis.

Gene Ontology (GO) - Biological Process for CTU2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002098 tRNA wobble uridine modification IEA,NAS 19017811
GO:0002143 tRNA wobble position uridine thiolation IBA --
GO:0006400 tRNA modification TAS --
GO:0008033 tRNA processing IEA --
GO:0032447 protein urmylation IEA --
genes like me logo Genes that share ontologies with CTU2: view

No data available for SIGNOR curated interactions for CTU2 Gene

Drugs & Compounds for CTU2 Gene

No Compound Related Data Available

Transcripts for CTU2 Gene

mRNA/cDNA for CTU2 Gene

(5) REFSEQ mRNAs :
(9) Additional mRNA sequences :
(10) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CTU2 Gene

Cytosolic thiouridylase subunit 2 homolog (S. pombe):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for CTU2
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for CTU2 Gene

No ASD Table

Relevant External Links for CTU2 Gene

GeneLoc Exon Structure for
CTU2
ECgene alternative splicing isoforms for
CTU2

Expression for CTU2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CTU2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for CTU2 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (18.9) and Blymphocyte (15.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for CTU2 Gene



Protein tissue co-expression partners for CTU2 Gene

NURSA nuclear receptor signaling pathways regulating expression of CTU2 Gene:

CTU2

SOURCE GeneReport for Unigene cluster for CTU2 Gene:

Hs.592074

Evidence on tissue expression from TISSUES for CTU2 Gene

  • Nervous system(4.3)
  • Skin(4.1)
genes like me logo Genes that share expression patterns with CTU2: view

Primer Products

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CTU2 Gene

Orthologs for CTU2 Gene

This gene was present in the common ancestor of animals.

Orthologs for CTU2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CTU2 33 34
  • 99.03 (n)
dog
(Canis familiaris)
Mammalia CTU2 33 34
  • 81.47 (n)
cow
(Bos Taurus)
Mammalia CTU2 33 34
  • 80.48 (n)
mouse
(Mus musculus)
Mammalia Ctu2 33 16 34
  • 79.07 (n)
rat
(Rattus norvegicus)
Mammalia Ctu2 33
  • 78.44 (n)
oppossum
(Monodelphis domestica)
Mammalia CTU2 34
  • 65 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CTU2 34
  • 59 (a)
OneToOne
chicken
(Gallus gallus)
Aves CTU2 33 34
  • 63.85 (n)
lizard
(Anolis carolinensis)
Reptilia CTU2 34
  • 53 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ctu2 33
  • 56.53 (n)
zebrafish
(Danio rerio)
Actinopterygii ctu2 33 34
  • 58.18 (n)
wufe06e11 33
fruit fly
(Drosophila melanogaster)
Insecta CG10189 33 34
  • 46.23 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta CTU2_ANOGA 33
  • 46.11 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.3713 34
  • 38 (a)
OneToMany
-- 34
  • 27 (a)
OneToMany
Species where no ortholog for CTU2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CTU2 Gene

ENSEMBL:
Gene Tree for CTU2 (if available)
TreeFam:
Gene Tree for CTU2 (if available)

Paralogs for CTU2 Gene

No data available for Paralogs for CTU2 Gene

Variants for CTU2 Gene

Sequence variations from dbSNP and Humsavar for CTU2 Gene

SNP ID Clin Chr 16 pos Sequence Context AA Info Type
rs587776988 Pathogenic 88,715,804(+) ATCCG(C/T)GCACG downstream-variant-500B, reference, missense
rs587776992 Pathogenic 88,715,692(+) GCTCC(-/AGCTCC)AGCTC downstream-variant-500B, cds-indel
rs1000032798 -- 88,711,594(+) TGTGG(C/T)TTATG intron-variant, upstream-variant-2KB
rs1000040633 -- 88,706,261(+) CGCCG(C/T)CCGCC upstream-variant-2KB, reference, missense
rs1000143981 -- 88,708,407(+) CAGAC(A/G/T)CAGCA intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for CTU2 Gene

Variant ID Type Subtype PubMed ID
dgv3064n100 CNV gain 25217958
dgv3065n100 CNV gain 25217958
esv1056304 CNV insertion 17803354
esv2715025 CNV deletion 23290073
esv2715026 CNV deletion 23290073
esv3553875 CNV deletion 23714750
nsv1061256 CNV gain 25217958
nsv1063024 CNV gain 25217958
nsv1065973 CNV loss 25217958
nsv1119453 CNV insertion 24896259
nsv1160442 CNV deletion 26073780
nsv1927 CNV insertion 18451855
nsv471113 CNV loss 18288195
nsv471114 CNV gain 18288195
nsv482951 CNV loss 15286789
nsv499595 CNV gain 21111241
nsv517643 CNV loss 19592680
nsv833327 CNV loss 17160897
nsv952070 CNV deletion 24416366

Variation tolerance for CTU2 Gene

Residual Variation Intolerance Score: 97% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 17.35; 98.16% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CTU2 Gene

Human Gene Mutation Database (HGMD)
CTU2
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CTU2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CTU2 Gene

Disorders for CTU2 Gene

MalaCards: The human disease database

(2) MalaCards diseases for CTU2 Gene - From: HGMD and DISEASES

Disorder Aliases PubMed IDs
phobia, specific
  • specific phobia
exotropia
  • divergent concomitant strabismus
- elite association - COSMIC cancer census association via MalaCards
Search CTU2 in MalaCards View complete list of genes associated with diseases

Relevant External Links for CTU2

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CTU2
genes like me logo Genes that share disorders with CTU2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CTU2 Gene

Publications for CTU2 Gene

  1. A functional proteomics approach links the ubiquitin-related modifier Urm1 to a tRNA modification pathway. (PMID: 19017811) Schlieker CD … Ploegh HL (Proceedings of the National Academy of Sciences of the United States of America 2008) 2 3 4 60
  2. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 60
  3. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3 60
  4. A genome-wide association study of autism using the Simons Simplex Collection: Does reducing phenotypic heterogeneity in autism increase genetic homogeneity? (PMID: 25534755) Chaste P … Devlin B (Biological psychiatry 2015) 3 60
  5. Toward a comprehensive characterization of a human cancer cell phosphoproteome. (PMID: 23186163) Zhou H … Mohammed S (Journal of proteome research 2013) 4 60

Products for CTU2 Gene

Sources for CTU2 Gene

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