Gene detail

Detailed information of ENSOJPP00000032613.1 in Anthopleura xanthogrammica

Genomic Location: chr1:1193694...1209670
NR annotation: XP_031572562.1, 116 kDa U5 small nuclear ribonucleoprotein component-like [Actinia tenebrosa]
Species Anthopleura xanthogrammica · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSOJPT00000037865

ATGGACGCCGATCTTTACGATGAGTTCGGTAACTATATCGGACCAGAACTGGACAGCGATGAAGAAAGCGaatcagaagaagaagaagatgaggAAGATGTTGAAGCTATCGCTGATAGAGATGACGAAGAACAAATGGACCAGGATGAAGAACCACGCATGCAAATTGTCTTGCATGAGGATAAGAAATATTATCCAACAGCTGAAGAAGTTTATGGAGAAGAAGTAGAGGCAATTGTACAAGAGGAAGATACACAACCATTAACAGAACCAATCATTAAACCAGTGATAAAGAAGAAATTCTCCCTCATTGAACAAGAACTTCCTCTGACAAATTATGAGATTGAGTACCTGGCAGACTTGATGGACAACCCAGACCTCATCAGAAATGTAACTTTGGCTGGACATTTACACTCTGGAAAGactTCATTCCTGGACTGCTTGTTTGAACAAACACACCCAGAACTTGAATCAAAAGAAGGCAAAGATcTTCATTATTCAGATTTTCtgtttacagaacaagagAGAGGCGTCAGCATAAAAAGTACTCCAGTTTCCCTGGTTCTCCCAGATACCAAAGGGAAATCATTCCTGGTCAATATCTTTGATACTCCAGgTCATGTGAACTTTTCAGATGAGGTGACAGCATCATATCGACTTTCTGATGGTGTTATGATCTTCATAGATGCATCAGAAGGGGTAATGTTAAACACAGAGAGACTACTGAAGCATGCTGTACAAGAACAACTGGCAATAACTATTTGTATAAATAAGATTGATCGTCTATTGTTGGAACTTAAACTTCCCCCTGCAGATGCATATTACAAGTTAAAACACATTGTCGATGAAGTAAACAGCTTATTAAGTACGTTTGCAGAGGATGATGATCTTGTGGTGTCTCCTTTGCTTGGGAATGTCTGTTTTGCCAGTTCAACATATGGATTCTGTTTTACGCTGCTTTCTTTTGCCAAACTCTATGTGAATAGTTTTGGTGGAGGACTAAATCCAAAAGATTTTGCCAATCGACTATGGGGTGACATGTACTTCAATTCAAAAACGAGGAAATTTACACGTAAAGCTCCATTAAGTACTTCGCACAGAAGTTTTGTTGAGTTCGTCCTGGAACCACTTTACAAGATCTTTGGACAGGTGGTAGGAGATGTAGACACCACTCTTCCTGATGTGCTGGATGAATTAGGTATCCATTTGACCAAGAAAGAAATGCAGTATAATATAAGACCTCTACTGAGACTGGTCTGTAAGAGATTCTTTGGAGACTTCACAGGTTTTGTTGATGTGTGTGTTCAGCATATTGCTTCACCAAAGGCAGTGGCAAGGACAAAGGTCAACCATACATACACAGGTCCTCTGGATTCAGATATTGTAGATTCTATGTATGACTGTAATGCTGAGGGTCCACTGATGGTACACACCACCAAGCAGTACCCATCCAATGATGCCACAGCCTTCCATGTTTTTGGTCGTGTTATGAGTGGGACATTATATGCTGGTCAACAAGTGCGCATCCTTGGAGAAAACTACACAATGGAAGACGAAGAAGACTCAAGGGTTGGGTTGgTTGGAAGGCTTTGGATCTCTGAAGCAAGGTATAAAATCGAAGTCAACAGAATCCCAGCAGGTAACTGGGTGTTGATCGAAGGAATCGACCAATCAATTGTCAAGACTTCGACCATAACAGAAGTGACAGGGACTGAAGAGGTCTACATCTTCCGCCCTCTAAAGTTCAACACTTGTTCTACTATCAAGATAGCCGTTGAACCGCACAACCCCTCAGAACTACCCAAGATGTTGGATGGGTTGCGTAAAGTCAACAAGAGTTACCCCATACTTACTACCAAGGTGGAAGAATCAGGAGAGCATGTTATTCTAGGGACAGGGGAACTCTACCTGGATAGTATCATGCACGATCTACGAAAATTATACTCCGAAATCGACATCAAGGTGGCAGATCCTGTCGTTGCATTCTGTGAGACAGTAGTAGAGACGTCATCCCTCAAGTGTTTTGCCGAGACACCAAACAAAAAGAATAAAGTCACTATGATTGCTGAGCCACTTGAGAAAGGTTTAGCTGAAGACATCGAGAATGAAAAAGTTCTTATCACATGGAACAAGAAAAAGCTTGGTGAATTTTTCCAGACCAAGTATGACTGGGACTTGTTAGCTGCTCGATCTATCTGGGCCTTTGGACCTGAGAATACTGGACCAAACATCTTGGTCGACGATACTCTTCCTTCTGAGGTGGATAAGAGCCTGTTAAACACTGTTAAAGACTCCATTATACAAGGTTTCCAGTGGGCAACAAGAGAAGGACCTTTGTGCGATGAACCGATTCGTAACGTAAAATTCAAGATTCTGGATGCGGTGATTGCTGGTGAACCCATCCATCGAGGAGGTGGCCAGATCATTCCTACATCCCGAAGGGTCGCCTATTCAGCTTTTCTTATGGCCACACCTCGCTTGATGGAGCCCTACTTTTTCGTCGAAGTTCAAGCTCCTGCTGACTGTGTATCTTCAGTATATACAGTGCTCGCTCACAGAAGAGGTCACGTGACTCAGGACGCACCAGTGCCAGGCTCCCCCCTGTACACTATCAAAGCGTTTATTCCAGCCATCGATTCGTTTGGATTCGAGACAGACTTGAGAACACATACCCAAGGGCAAGCCTTCTGTATGTCTGTGTTCCATCACTGGCAGATCGTTCCTGGTGATCCACTGgataaaagcatcattatTCGCCCTCTTGAACCACAGCCCGCTACTCACCTGGCTAGGGAATTCATGATCAAAACGCGTCGACGAAAGGGTCTCAGTGAAGACGTCAGCATTAATAAGTTCTTCGATGATCCTATGTTGTTGGAGTTGGCCCGCCAAGATGTCATGTTCAACTACCCCATGTAA

Transcript

ENSOJPT00000037865

GCACGTTTTTCAAGATGGACGCCGATCTTTACGATGAGTTCGGTAACTATATCGGACCAGAACTGGACAGCGATGAAGAAAGCGaatcagaagaagaagaagatgaggAAGATGTTGAAGCTATCGCTGATAGAGATGACGAAGAACAAATGGACCAGGATGAAGAACCACGCATGCAAATTGTCTTGCATGAGGATAAGAAATATTATCCAACAGCTGAAGAAGTTTATGGAGAAGAAGTAGAGGCAATTGTACAAGAGGAAGATACACAACCATTAACAGAACCAATCATTAAACCAGTGATAAAGAAGAAATTCTCCCTCATTGAACAAGAACTTCCTCTGACAAATTATGAGATTGAGTACCTGGCAGACTTGATGGACAACCCAGACCTCATCAGAAATGTAACTTTGGCTGGACATTTACACTCTGGAAAGactTCATTCCTGGACTGCTTGTTTGAACAAACACACCCAGAACTTGAATCAAAAGAAGGCAAAGATcTTCATTATTCAGATTTTCtgtttacagaacaagagAGAGGCGTCAGCATAAAAAGTACTCCAGTTTCCCTGGTTCTCCCAGATACCAAAGGGAAATCATTCCTGGTCAATATCTTTGATACTCCAGgTCATGTGAACTTTTCAGATGAGGTGACAGCATCATATCGACTTTCTGATGGTGTTATGATCTTCATAGATGCATCAGAAGGGGTAATGTTAAACACAGAGAGACTACTGAAGCATGCTGTACAAGAACAACTGGCAATAACTATTTGTATAAATAAGATTGATCGTCTATTGTTGGAACTTAAACTTCCCCCTGCAGATGCATATTACAAGTTAAAACACATTGTCGATGAAGTAAACAGCTTATTAAGTACGTTTGCAGAGGATGATGATCTTGTGGTGTCTCCTTTGCTTGGGAATGTCTGTTTTGCCAGTTCAACATATGGATTCTGTTTTACGCTGCTTTCTTTTGCCAAACTCTATGTGAATAGTTTTGGTGGAGGACTAAATCCAAAAGATTTTGCCAATCGACTATGGGGTGACATGTACTTCAATTCAAAAACGAGGAAATTTACACGTAAAGCTCCATTAAGTACTTCGCACAGAAGTTTTGTTGAGTTCGTCCTGGAACCACTTTACAAGATCTTTGGACAGGTGGTAGGAGATGTAGACACCACTCTTCCTGATGTGCTGGATGAATTAGGTATCCATTTGACCAAGAAAGAAATGCAGTATAATATAAGACCTCTACTGAGACTGGTCTGTAAGAGATTCTTTGGAGACTTCACAGGTTTTGTTGATGTGTGTGTTCAGCATATTGCTTCACCAAAGGCAGTGGCAAGGACAAAGGTCAACCATACATACACAGGTCCTCTGGATTCAGATATTGTAGATTCTATGTATGACTGTAATGCTGAGGGTCCACTGATGGTACACACCACCAAGCAGTACCCATCCAATGATGCCACAGCCTTCCATGTTTTTGGTCGTGTTATGAGTGGGACATTATATGCTGGTCAACAAGTGCGCATCCTTGGAGAAAACTACACAATGGAAGACGAAGAAGACTCAAGGGTTGGGTTGgTTGGAAGGCTTTGGATCTCTGAAGCAAGGTATAAAATCGAAGTCAACAGAATCCCAGCAGGTAACTGGGTGTTGATCGAAGGAATCGACCAATCAATTGTCAAGACTTCGACCATAACAGAAGTGACAGGGACTGAAGAGGTCTACATCTTCCGCCCTCTAAAGTTCAACACTTGTTCTACTATCAAGATAGCCGTTGAACCGCACAACCCCTCAGAACTACCCAAGATGTTGGATGGGTTGCGTAAAGTCAACAAGAGTTACCCCATACTTACTACCAAGGTGGAAGAATCAGGAGAGCATGTTATTCTAGGGACAGGGGAACTCTACCTGGATAGTATCATGCACGATCTACGAAAATTATACTCCGAAATCGACATCAAGGTGGCAGATCCTGTCGTTGCATTCTGTGAGACAGTAGTAGAGACGTCATCCCTCAAGTGTTTTGCCGAGACACCAAACAAAAAGAATAAAGTCACTATGATTGCTGAGCCACTTGAGAAAGGTTTAGCTGAAGACATCGAGAATGAAAAAGTTCTTATCACATGGAACAAGAAAAAGCTTGGTGAATTTTTCCAGACCAAGTATGACTGGGACTTGTTAGCTGCTCGATCTATCTGGGCCTTTGGACCTGAGAATACTGGACCAAACATCTTGGTCGACGATACTCTTCCTTCTGAGGTGGATAAGAGCCTGTTAAACACTGTTAAAGACTCCATTATACAAGGTTTCCAGTGGGCAACAAGAGAAGGACCTTTGTGCGATGAACCGATTCGTAACGTAAAATTCAAGATTCTGGATGCGGTGATTGCTGGTGAACCCATCCATCGAGGAGGTGGCCAGATCATTCCTACATCCCGAAGGGTCGCCTATTCAGCTTTTCTTATGGCCACACCTCGCTTGATGGAGCCCTACTTTTTCGTCGAAGTTCAAGCTCCTGCTGACTGTGTATCTTCAGTATATACAGTGCTCGCTCACAGAAGAGGTCACGTGACTCAGGACGCACCAGTGCCAGGCTCCCCCCTGTACACTATCAAAGCGTTTATTCCAGCCATCGATTCGTTTGGATTCGAGACAGACTTGAGAACACATACCCAAGGGCAAGCCTTCTGTATGTCTGTGTTCCATCACTGGCAGATCGTTCCTGGTGATCCACTGgataaaagcatcattatTCGCCCTCTTGAACCACAGCCCGCTACTCACCTGGCTAGGGAATTCATGATCAAAACGCGTCGACGAAAGGGTCTCAGTGAAGACGTCAGCATTAATAAGTTCTTCGATGATCCTATGTTGTTGGAGTTGGCCCGCCAAGATGTCATGTTCAACTACCCCATGTAACACCGAACAaaatcaaccaaccaatcaaccgtTGCTACATTCTTGGTTTTCATAGTAGCCATGTTGGTTAACTTTTGctttgtcatccaacatggccgccatgtccggcatttcttatttcattctcttgagaacgATTGCAAACCacctataaaatatttataacccCACGGATATTCCGTCATCTACATCTATCAGTACGGTCTGTTACGAGCTACACtttaatgttacggcatgtcgtaccgtgtacatgCTGTAATTTGGTACGTTTCCCACTAATACGACAACCATTGACCACTTTAGAAAAGAGTGTGGAGCGAGTTTCGACTTTGACCCTGTTTCGTTAAAAAGAACCAGATTTACAATCGTTCAAAGGTGTTGAAAATTTACAAGGGCCCCTGTAACTATACATTGTTTGCAAATGTTCAACATTTTTGAACGcaataattctggttcttttcaatcaatcatattcaaatttgccagacttgcTAATCTTAAGATACTTTATCAGatgacaaaatgtttttttttaaatccaaaactcgccccagtcccttgctcgtttctaaATTGGACTATTCTTGTCGGAAGCCCTGATTGTTACGACAGCATGTTGTAATAATCATCATCTAAATCTCATTATCTTGAACTATATGACTCGCCAAGCCAGTGTGAATATCTTCTCTAAGATGatcatttataaaatataacttTTTCTTCAGTTCCTATCGCATGTAATTTTACATCTAGTTTTATAAAATTGTACAAAACGTGAAGTATTGCTTATTGTAATTATGGTTTTTCGAAATATCGAtactttttccttcc

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5F3X4	116 kDa U5 small nuclear ribonucleoprotein component OS=Gallus gallus OX=9031 GN=EFTUD2 PE=2 SV=1
O08810	116 kDa U5 small nuclear ribonucleoprotein component OS=Mus musculus OX=10090 GN=Eftud2 PE=1 SV=1
A4FUD3	116 kDa U5 small nuclear ribonucleoprotein component OS=Bos taurus OX=9913 GN=EFTUD2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001678 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16004 all species →	EFTUD2	116 kDa U5 small nuclear ribonucleoprotein component N-terminus	Family	Interproscan
PF00009 all species →	GTP_EFTU	Elongation factor Tu GTP binding domain	Domain	Interproscan
PF00679 all species →	EFG_C	Elongation factor G C-terminus	Domain	Interproscan
PF03764 all species →	EFG_IV	Elongation factor G, domain IV	Domain	Interproscan
PF03144 all species →	GTP_EFTU_D2	Elongation factor Tu domain 2	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000795 all species →	Domain	Translational (tr)-type GTP-binding domain	Interproscan
IPR031950 all species →	Domain	116kDa U5 small nuclear ribonucleoprotein component, N-terminal	Interproscan
IPR000640 all species →	Domain	Elongation factor EFG, domain V-like	Interproscan
IPR005517 all species →	Domain	Translation elongation factor EFG/EF2, domain IV	Interproscan
IPR004161 all species →	Domain	Translation elongation factor EFTu-like, domain 2	Interproscan
IPR044121 all species →	Domain	Snu114, GTP-binding domain	Interproscan
IPR035655 all species →	Domain	116kDa U5 small nuclear ribonucleoprotein component, C-terminal	Interproscan
IPR035647 all species →	Homologous_superfamily	EF-G domain III/V-like	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR020568 all species →	Homologous_superfamily	Ribosomal protein uS5 domain 2-type superfamily	Interproscan
IPR009000 all species →	Homologous_superfamily	Translation protein, beta-barrel domain superfamily	Interproscan
IPR005225 all species →	Domain	Small GTP-binding protein domain	Interproscan
IPR031157 all species →	Conserved_site	Tr-type G domain, conserved site	Interproscan
IPR014721 all species →	Homologous_superfamily	Small ribosomal subunit protein uS5 domain 2-type fold, subgroup	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR42908 all species →	TRANSLATION ELONGATION FACTOR-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003924 all species →	Molecular Function	GTPase activity	Interproscan
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan
GO:0000398 all species →	Biological Process	mRNA splicing, via spliceosome	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0030623 all species →	Molecular Function	U5 snRNA binding	Interproscan
GO:0046540 all species →	Cellular Component	U4/U6 x U5 tri-snRNP complex	Interproscan
GO:0071007 all species →	Cellular Component	U2-type catalytic step 2 spliceosome	Interproscan
GO:1990904 all species →	Cellular Component	ribonucleoprotein complex	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
K12852	EFTUD2; 116 kDa U5 small nuclear ribonucleoprotein component	-	Spliceosome	ko03041	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 Anthopleura xanthogrammica 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 Anthopleura xanthogrammica, 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 →