Gene detail

Detailed information of ENSPYFP00000036092.1 in Pteroeides griseum

Genomic Location: chr9:5032947...5043226
NR annotation: no NCBI-NR hit recorded
Species Pteroeides griseum · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

ENSPYFT00000038316

aaacaaaatggagGATAATTTACAAGCTGATCTTATAAAACCTCGTCGTAAGCGACGTCGTTTTACAAAACTGGAGTTTCCTTTCCCAGTTCCACTAAATAAGGACAACACttcaaatatttggtattattATGAGGGATATTTACGGTGCAATAGCGTggttgttgaaaatgttggaGATTTCACGTTTCTTTATAAAATGGGATTTTTTGGTAAAGGTATTATGTCACGAAGCAAACCagaatatgaaaaaatatcaaatatttcACAACTTGCGTTTTCAAATTCTGACAAGCTGAGAAGATTGCCACCTAATGAAAGAACTATTCGTCAGTCAAAGTTTAAAAAGTGTAGAAAGGAAAGgTTCTGTCAGCATTTGTCATGGAGCAAATTATCAAGACAGATGAATCAGCATGGTAGTGATGAGGAGACAAGTGTTTCAGATGACGAGTCACCACTCACAAGTGAAGAACAAATTGTAAATGATGACTGTGATAGTAAAGAAGTGGGTGGTAGTGAAGAGAATAGGGGGATTGATCAGGATGAGGAGGAAGATGTCAGGATTGATGATGTTATACTGGATTTAGTTAATAAAGAACCCAAATTATCCCAGGACACTGAATCTACTGGTAAACGTCTAAAGCCTGATCCTTATCAAGTTTACGAATGTCTTCAATTGACACTGGAAGAGGCGTTCTTTCTGAGCTTTGGTCTTGGCTGTTTATCCATTTTGAAAGCTAATCAGAAGTTATCCTTATCGATGTTGTGGTCAGAATTTTGTGAAAGAAATCCAGATTTTTTCCGAAACTACATTGCTTACCATTATTATCGAAGTAAAGGTTGGGTCCCACAAGTTGGTCTCAAATATGGAACAGATTTAGTTCTTTACAAGAAAGGAATGCCCTTTTTTCATTCAAGTTACGCAGTTGTTACAACACTCGTGAATGATGAAGGAAAAAGATCTATTCTGTCTGACAATGTTTCTAGTGGCCAAGAATGGACATGGAAAAATTTAGCTTCCCTGAATCGTTTAAATGAACATGTAGCAAAggaGTTATTACTTTGTTCTATTACTGTTCCCTCAGGTAGAAAGGAAGAATGTTTGAAAAACCCACATAGTATAAAAGACTTCACAGTCCAGGAAACGATCGTCCGACGTTGGATTCCGAAGAGGGCACGCGAGTCTTCCAGTGAGGATTAATATCACGACAGCGCATGTCTAGTTACCACGTATGGTGAAGGCGCTTTGGCACGCAATTTCTACTTTGACGCCCGCAATTTCTACTTTGACGCCCGCAATTTCTACTTTGACGCCCACATCATCGCATGTGATGTCGTCATGTGCTGACAGGACTAGTAGCACCCCAATACCACAAGAATGAGTCGCCTAGAAGACCTCGCGCCCATTCCTTCTCGGTGTACTTCGCTCAAGAGCCCCGTGACAAGTTCTCTAGCTAATAACTCCGACATTCTAAAACACTCCTTCAAAGTTAATGCAAAATAATACTTCGATGTAAAACGAAGCAATGGCTGACAAATACGAAAGAACAGGTGTtgaattaaaaatgttttctgtTGAGCTACCAACCGACTTTTACACTTTGCTATTTGTACAAAAAACAGAATTGTGCCGCATTGTTGTCTTATTCACTTTGTGAATTTGTAGTGTTTAAATATTGATATTTTACATGCTGTGAACAAGAAATCCTATTTTTCGTGTTTCAACATTTTGATCGTGGCGACTTGACACATCTTGTTAGCCCATCATTTCAAGCTAAGAAAAAAAGATTTAAATGAGAACGAGTAAATATTATGCTTGACTGTTTGCCTGTAGTGGTGCACCGGAACTCGGTTCCGGCCGGAACCGGAACTTTTGAACTCTGtcatttatagaaaaaattcaatagacgaaaatttagtttaaaatcacttcatgtaaaaatattaaaaagaataaacataaaattatataatatcgtaattcaaacaaacaaatgccGGTAAAATGgtattaacatttaacaac

Protein

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005826 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01974 all species →	tRNA_int_endo	tRNA intron endonuclease, catalytic C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036167 all species →	Homologous_superfamily	tRNA intron endonuclease, catalytic domain-like superfamily	Interproscan
IPR016589 all species →	Family	tRNA-splicing endonuclease, SEN2 subunit	Interproscan
IPR006677 all species →	Domain	tRNA intron endonuclease, catalytic domain-like	Interproscan
IPR006676 all species →	Family	tRNA-splicing endonuclease	Interproscan
IPR011856 all species →	Homologous_superfamily	tRNA endonuclease-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21227 all species →	TRNA-SPLICING ENDONUCLEASE SUBUNIT SEN2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006388 all species →	Biological Process	tRNA splicing, via endonucleolytic cleavage and ligation	Interproscan
GO:0000213 all species →	Molecular Function	tRNA-intron endonuclease activity	Interproscan
GO:0000214 all species →	Cellular Component	tRNA-intron endonuclease complex	Interproscan
GO:0000379 all species →	Biological Process	tRNA-type intron splice site recognition and cleavage	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K15322	TSEN2; tRNA-splicing endonuclease subunit Sen2	EC:4.6.1.16	Transfer RNA biogenesis	ko03016	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Co-expression network

Genes whose expression across the transcriptome samples of Pteroeides griseum tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Pteroeides griseum, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.	template found	open →
Expression heatmap	Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.	no expression matrix	–
Gene family / orthogroup	Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.		open →
Gene set analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →