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Aliases for TSEN34 Gene

Aliases for TSEN34 Gene

  • TSEN34 TRNA Splicing Endonuclease Subunit 2 3
  • LENG5 3 4 6
  • SEN34 3 4 6
  • Leukocyte Receptor Cluster (LRC) Member 5 2 3
  • Leukocyte Receptor Cluster Member 5 3 4
  • TRNA-Intron Endonuclease Sen34 3 4
  • HsSen34 3 4
  • PCH2C 3 6
  • TRNA Splicing Endonuclease 34 Homolog (SEN34, S. Cerevisiae) 2
  • TRNA Splicing Endonuclease 34 Homolog (S. Cerevisiae) 2
  • TRNA-Splicing Endonuclease Subunit Sen34 3
  • CTD-3093M3.1 3
  • EC 4.6.1.16 4
  • SEN34L 3

External Ids for TSEN34 Gene

Previous HGNC Symbols for TSEN34 Gene

  • LENG5

Previous GeneCards Identifiers for TSEN34 Gene

  • GC19P059387
  • GC19P054794
  • GC19P054801
  • GC19P051009
  • GC19P054812
  • GC19P054819
  • GC19P054826
  • GC19P054834
  • GC19P054849
  • GC19P054863
  • GC19P054887

Summaries for TSEN34 Gene

Entrez Gene Summary for TSEN34 Gene

  • This gene encodes a catalytic subunit of the tRNA splicing endonuclease, which catalyzes the removal of introns from precursor tRNAs. The endonuclease complex is also associated with a pre-mRNA 3-prime end processing factor. A mutation in this gene results in the neurological disorder pontocerebellar hypoplasia type 2. Multiple alternatively spliced variants, encoding the same protein, have been identified.[provided by RefSeq, Oct 2009]

GeneCards Summary for TSEN34 Gene

TSEN34 (TSEN34 TRNA Splicing Endonuclease Subunit) is a Protein Coding gene. Diseases associated with TSEN34 include pontocerebellar hypoplasia type 2c and tsen34-related pontocerebellar hypoplasia. Among its related pathways are Transcription of tRNA. GO annotations related to this gene include nucleic acid binding and tRNA-intron endonuclease activity.

UniProtKB/Swiss-Prot for TSEN34 Gene

  • Constitutes one of the two catalytic subunit of the tRNA-splicing endonuclease complex, a complex responsible for identification and cleavage of the splice sites in pre-tRNA. It cleaves pre-tRNA at the 5- and 3-splice sites to release the intron. The products are an intron and two tRNA half-molecules bearing 2,3-cyclic phosphate and 5-OH termini. There are no conserved sequences at the splice sites, but the intron is invariably located at the same site in the gene, placing the splice sites an invariant distance from the constant structural features of the tRNA body. It probably carries the active site for 3-splice site cleavage. The tRNA splicing endonuclease is also involved in mRNA processing via its association with pre-mRNA 3-end processing factors, establishing a link between pre-tRNA splicing and pre-mRNA 3-end formation, suggesting that the endonuclease subunits function in multiple RNA-processing events.

Gene Wiki entry for TSEN34 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TSEN34 Gene

Genomics for TSEN34 Gene

Regulatory Elements for TSEN34 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for TSEN34 Gene

Start:
54,189,938 bp from pter
End:
54,194,536 bp from pter
Size:
4,599 bases
Orientation:
Plus strand

Genomic View for TSEN34 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for TSEN34 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TSEN34 Gene

Proteins for TSEN34 Gene

  • Protein details for TSEN34 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BSV6-SEN34_HUMAN
    Recommended name:
    tRNA-splicing endonuclease subunit Sen34
    Protein Accession:
    Q9BSV6
    Secondary Accessions:
    • A6NNB1
    • B0V3J1
    • Q9BVT1
    • Q9H6H5

    Protein attributes for TSEN34 Gene

    Size:
    310 amino acids
    Molecular mass:
    33652 Da
    Quaternary structure:
    • tRNA splicing endonuclease is a heterotetramer composed of SEN2, SEN15, SEN34/LENG5 and SEN54. tRNA splicing endonuclease complex also contains proteins of the pre-mRNA 3-end processing machinery such as CLP1, CPSF1, CPSF4 and CSTF2.
    Miscellaneous:
    • Belongs to the leukocyte receptor cluster (LRC) present on 19q13.4
    SequenceCaution:
    • Sequence=BAB15284.1; Type=Erroneous termination; Positions=311; Note=Translated as stop.; Evidence={ECO:0000305};

neXtProt entry for TSEN34 Gene

Proteomics data for TSEN34 Gene at MOPED

Post-translational modifications for TSEN34 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for TSEN34 Gene

Domains for TSEN34 Gene

Gene Families for TSEN34 Gene

HGNC:
  • TSEN :tRNA splicing endonuclease subunits

Protein Domains for TSEN34 Gene

Graphical View of Domain Structure for InterPro Entry

Q9BSV6

UniProtKB/Swiss-Prot:

SEN34_HUMAN :
  • Q9BSV6
Family:
  • Belongs to the tRNA-intron endonuclease family.
genes like me logo Genes that share domains with TSEN34: view

Function for TSEN34 Gene

Molecular function for TSEN34 Gene

UniProtKB/Swiss-Prot CatalyticActivity: PretRNA = a 3-half-tRNA molecule with a 5-OH end + a 5-half-tRNA molecule with a 2,3-cyclic phosphate end + an intron with a 2,3-cyclic phosphate and a 5-hydroxyl terminus
UniProtKB/Swiss-Prot Function: Constitutes one of the two catalytic subunit of the tRNA-splicing endonuclease complex, a complex responsible for identification and cleavage of the splice sites in pre-tRNA. It cleaves pre-tRNA at the 5- and 3-splice sites to release the intron. The products are an intron and two tRNA half-molecules bearing 2,3-cyclic phosphate and 5-OH termini. There are no conserved sequences at the splice sites, but the intron is invariably located at the same site in the gene, placing the splice sites an invariant distance from the constant structural features of the tRNA body. It probably carries the active site for 3-splice site cleavage. The tRNA splicing endonuclease is also involved in mRNA processing via its association with pre-mRNA 3-end processing factors, establishing a link between pre-tRNA splicing and pre-mRNA 3-end formation, suggesting that the endonuclease subunits function in multiple RNA-processing events.

Enzyme Numbers (IUBMB) for TSEN34 Gene

Gene Ontology (GO) - Molecular Function for TSEN34 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000213 tRNA-intron endonuclease activity IBA --
GO:0003676 nucleic acid binding IEA --
GO:0005515 protein binding --
GO:0016829 lyase activity IEA --
genes like me logo Genes that share ontologies with TSEN34: view

Phenotypes for TSEN34 Gene

GenomeRNAi human phenotypes for TSEN34:
genes like me logo Genes that share phenotypes with TSEN34: view

Animal Model Products

CRISPR Products

miRNA for TSEN34 Gene

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for TSEN34

In Situ Assay Products

Flow Cytometry Products

No data available for Animal Models , Transcription Factor Targeting and HOMER Transcription for TSEN34 Gene

Localization for TSEN34 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TSEN34 Gene

Nucleus. Nucleus, nucleolus. Note=May be transiently localized in the nucleolus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TSEN34 Gene COMPARTMENTS Subcellular localization image for TSEN34 gene
Compartment Confidence
nucleus 5
cytosol 2
mitochondrion 1

Gene Ontology (GO) - Cellular Components for TSEN34 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000214 tRNA-intron endonuclease complex IEA --
GO:0005634 nucleus IDA --
GO:0005654 nucleoplasm IDA --
GO:0005730 nucleolus IEA --
genes like me logo Genes that share ontologies with TSEN34: view

Pathways for TSEN34 Gene

SuperPathways for TSEN34 Gene

Superpath Contained pathways
1 Transcription of tRNA
genes like me logo Genes that share pathways with TSEN34: view

Pathways by source for TSEN34 Gene

1 Qiagen pathway for TSEN34 Gene

Gene Ontology (GO) - Biological Process for TSEN34 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000379 tRNA-type intron splice site recognition and cleavage IBA --
GO:0006388 tRNA splicing, via endonucleolytic cleavage and ligation --
GO:0006397 mRNA processing IEA --
GO:0090501 RNA phosphodiester bond hydrolysis IBA --
GO:0090502 RNA phosphodiester bond hydrolysis, endonucleolytic IEA --
genes like me logo Genes that share ontologies with TSEN34: view

Transcripts for TSEN34 Gene

Unigene Clusters for TSEN34 Gene

TRNA splicing endonuclease 34 homolog (S. cerevisiae):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for TSEN34

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TSEN34 Gene

ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4a · 4b · 4c ^ 5a · 5b ^ 6a · 6b ^ 7 ^ 8 ^ 9a · 9b · 9c
SP1: - -
SP2: -
SP3: - - - - -
SP4: - - -
SP5:
SP6:
SP7: - -
SP8:

Relevant External Links for TSEN34 Gene

GeneLoc Exon Structure for
TSEN34
ECgene alternative splicing isoforms for
TSEN34

Expression for TSEN34 Gene

mRNA expression in normal human tissues for TSEN34 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for TSEN34 Gene

This gene is overexpressed in Whole Blood (8.8).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for TSEN34 Gene

SOURCE GeneReport for Unigene cluster for TSEN34 Gene Hs.15580

genes like me logo Genes that share expressions with TSEN34: view

In Situ Assay Products

No data available for mRNA Expression by UniProt/SwissProt for TSEN34 Gene

Orthologs for TSEN34 Gene

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

Orthologs for TSEN34 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TSEN34 35
  • 99.57 (n)
  • 100 (a)
TSEN34 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia TSEN34 35
  • 86.13 (n)
  • 91.29 (a)
TSEN34 36
  • 91 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TSEN34 35
  • 87.2 (n)
  • 90.97 (a)
TSEN34 36
  • 90 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Tsen34 35
  • 84.52 (n)
  • 89.35 (a)
Tsen34 16
Tsen34 36
  • 87 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia TSEN34 36
  • 45 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TSEN34 36
  • 56 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Tsen34 35
  • 83.44 (n)
  • 89.68 (a)
lizard
(Anolis carolinensis)
Reptilia TSEN34 36
  • 46 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia tsen34 35
  • 53.1 (n)
  • 46.67 (a)
zebrafish
(Danio rerio)
Actinopterygii tsen34 35
  • 53.48 (n)
  • 45.9 (a)
tsen34 36
  • 37 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG33260 36
  • 23 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea K08D10.12 36
  • 25 (a)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AFL012C 35
  • 53.03 (n)
  • 48.48 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SEN34 35
  • 40.15 (n)
  • 30.5 (a)
SEN34 36
  • 25 (a)
OneToOne
SEN34 38
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0A08932g 35
  • 41.47 (n)
  • 30.23 (a)
bread mold
(Neurospora crassa)
Ascomycetes NCU08032 35
  • 45.61 (n)
  • 32.63 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes sen34 35
  • 41.74 (n)
  • 30.99 (a)
Species with no ortholog for TSEN34:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)

Evolution for TSEN34 Gene

ENSEMBL:
Gene Tree for TSEN34 (if available)
TreeFam:
Gene Tree for TSEN34 (if available)

Paralogs for TSEN34 Gene

No data available for Paralogs for TSEN34 Gene

Variants for TSEN34 Gene

Sequence variations from dbSNP and Humsavar for TSEN34 Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type MAF
rs4042 -- 54,193,607(-) ACAGA(G/T)GAATC utr-variant-3-prime, intron-variant
rs7595 Benign 54,193,224(+) GCCCC(C/T)GAGGA synonymous-codon, reference
rs15264 -- 54,193,236(-) AGTGG(G/T)ATGGT synonymous-codon, reference
rs36619 -- 54,194,841(+) ctggg(C/T)gacag downstream-variant-500B
rs36620 -- 54,194,177(+) tgtgt(A/G)tgtgt utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for TSEN34 Gene

Variant ID Type Subtype PubMed ID
esv2718812 CNV Deletion 23290073
dgv4001n71 CNV Loss 21882294
dgv4002n71 CNV Loss 21882294
nsv912398 CNV Loss 21882294
nsv510774 CNV Loss 20534489
nsv9751 CNV Gain 18304495
dgv1118e1 CNV Complex 17122850
nsv428371 CNV Gain+Loss 18775914
dgv1119e1 CNV Complex 17122850
nsv2546 CNV Loss 18451855

Relevant External Links for TSEN34 Gene

HapMap Linkage Disequilibrium report
TSEN34
Human Gene Mutation Database (HGMD)
TSEN34

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TSEN34 Gene

Disorders for TSEN34 Gene

(1) OMIM Diseases for TSEN34 Gene (608754)

UniProtKB/Swiss-Prot

SEN34_HUMAN
  • Pontocerebellar hypoplasia 2C (PCH2C) [MIM:612390]: A disorder characterized by an abnormally small cerebellum and brainstem, and progressive microcephaly from birth combined with extrapyramidal dyskinesia. Severe chorea occurs and epilepsy is frequent. There are no signs of spinal cord anterior horn cells degeneration. {ECO:0000269 PubMed:18711368}. Note=The disease is caused by mutations affecting the gene represented in this entry.

(1) University of Copenhagen DISEASES for TSEN34 Gene

Relevant External Links for TSEN34

GeneTests
TSEN34
GeneReviews
TSEN34
genes like me logo Genes that share disorders with TSEN34: view

Publications for TSEN34 Gene

  1. Extensive gene duplications and a large inversion characterize the human leukocyte receptor cluster. (PMID: 10941842) Wende H. … Ziegler A. (Immunogenetics 2000) 2 3 4
  2. Identification of a human endonuclease complex reveals a link between tRNA splicing and pre-mRNA 3' end formation. (PMID: 15109492) Paushkin S.V. … Trotta C.R. (Cell 2004) 2 3 4
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  5. tRNA splicing endonuclease mutations cause pontocerebellar hypoplasia. (PMID: 18711368) Budde B.S. … Baas F. (Nat. Genet. 2008) 3 4

Products for TSEN34 Gene

Sources for TSEN34 Gene

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