Gene
Entrez ID Entrez Gene ID - the GENE ID in NCBI Gene database.
51091
Gene name Gene Name - the full gene name approved by the HGNC.
Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthase
Gene symbol Gene Symbol - the official gene symbol approved by the HGNC.
SEPSECS
Synonyms (NCBI Gene) Gene synonyms aliases
LP, PCH2D, SLA, SLA-p35, SLA/LP, SecS
Disease Acronyms (UniProt) Disease acronyms from UniProt database
PCH2D
Chromosome Chromosome number
4
Chromosome location Chromosomal Location - indicates the cytogenetic location of the gene or region on the chromosome.
4p15.2
Summary Summary of gene provided in NCBI Entrez Gene.
The amino acid selenocysteine is the only amino acid that does not have its own tRNA synthetase. Instead, this amino acid is synthesized on its cognate tRNA in a three step process. The protein encoded by this gene catalyzes the third step in the process,
SNPs SNP information provided by dbSNP.
SNP ID Visualize variation Clinical significance Consequence
rs146539065 C>T Likely-pathogenic Synonymous variant, coding sequence variant
rs267607035 C>T Pathogenic Coding sequence variant, missense variant
rs267607036 T>C Pathogenic Coding sequence variant, missense variant
rs757504141 T>C Likely-pathogenic Intron variant
rs773876739 T>A,C Pathogenic Coding sequence variant, missense variant
miRNA miRNA information provided by mirtarbase database.
miRTarBase ID miRNA Experiments Reference
MIRT048507 hsa-miR-100-5p CLASH 23622248
MIRT653947 hsa-miR-548c-3p HITS-CLIP 23824327
MIRT653946 hsa-miR-1264 HITS-CLIP 23824327
MIRT653945 hsa-miR-216a-5p HITS-CLIP 23824327
MIRT653944 hsa-miR-513c-5p HITS-CLIP 23824327
Gene ontology (GO) Gene ontology information of associated ontologies with gene provided by GO database.
GO ID Ontology Definition Evidence Reference
GO:0000049 Function TRNA binding IBA 21873635
GO:0000049 Function TRNA binding ISS
GO:0001514 Process Selenocysteine incorporation IBA 21873635
GO:0001514 Process Selenocysteine incorporation ISS
GO:0005515 Function Protein binding IPI 22190034
Other IDs Other ids provides unique ids of gene in databases such as OMIM, HGNC, ENSEMBLE.
MIM HGNC e!Ensembl
613009 30605 ENSG00000109618
Protein
UniProt ID Q9HD40
Protein name O-phosphoseryl-tRNA(Sec) selenium transferase (EC 2.9.1.2) (Liver-pancreas antigen) (LP) (SLA-p35) (SLA/LP autoantigen) (Selenocysteine synthase) (Sec synthase) (Selenocysteinyl-tRNA(Sec) synthase) (Sep-tRNA:Sec-tRNA synthase) (SepSecS) (Soluble liver ant
Protein function Converts O-phosphoseryl-tRNA(Sec) to selenocysteinyl-tRNA(Sec) required for selenoprotein biosynthesis.
PDB 3HL2 , 4ZDL , 4ZDO , 4ZDP , 7L1T , 7MDL , 8G9Z
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF05889 SepSecS 61 459 O-phosphoseryl-tRNA(Sec) selenium transferase, SepSecS Domain
Tissue specificity TISSUE SPECIFICITY: Primarily expressed in liver, pancreas, kidney and lung. Overexpressed in PHA-stimulated T-cells.
Sequence
Sequence length 501
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG   Reactome
  Selenocompound metabolism
Aminoacyl-tRNA biosynthesis
Metabolic pathways
  Selenocysteine synthesis
Associated diseases Disease information provided by ClinVar, GenCC, and GWAS databases.
Causal
Disease term Disease name dbSNP ID References
Arthrogryposis multiplex congenita Arthrogryposis rs1586285494, rs80358233, rs137853305, rs1559154278, rs398124167, rs398124172, rs587780399, rs786204576, rs786204430, rs769345284, rs749355583, rs793888524, rs793888525, rs878854368, rs555445835
View all (138 more)
Developmental delay Global developmental delay rs28941770, rs199469464, rs281865469, rs143747297, rs398123009, rs587777428, rs786205133, rs606231459, rs797044854, rs797045027, rs864309504, rs878853160, rs886039902, rs886042046, rs886041291
View all (32 more)
Spastic diplegia Little`s Disease rs672601336
Nystagmus Nystagmus rs137852207, rs137852208, rs1928435502, rs137852209, rs137852210, rs1929191668, rs137852211, rs137852212, rs2124209414, rs387906720, rs387906721, rs1602791884, rs786205896
Unknown
Disease term Disease name Evidence References Source
Ptosis Blepharoptosis ClinVar
Progressive Cerebello-Cerebral Atrophy progressive cerebello-cerebral atrophy GenCC
Metabolic Syndrome Metabolic Syndrome GWAS
Associations from Text Mining
Disease Name Relationship Type References
Adenocarcinoma of Lung Associate 36879187
Ataxia Associate 27576344
Atrial Fibrillation Associate 36952494
Atrophy Associate 32295391, 35091508
Brain Diseases Associate 26115735, 28133863, 35091508
Cerebellar Ataxia Associate 29464431
Cerebellar Diseases Associate 29464431
Chromosome Aberrations Associate 20920667
Cognition Disorders Associate 29464431
Crohn Disease Associate 23112913