Gene detail

Detailed information of ENSXLYP00000003782.1 in Pelagia noctiluca

Genomic Location: chr12:3307899...3322274
NR annotation: XP_002155868.2, sorting nexin-17 [Hydra vulgaris]
Species Pelagia noctiluca · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

ENSXLYT00000003947

GGGTGCATAAAAGATTGTCGATCGCTGAACCAGAATTCTTAATGGTTTATTATACAAAGGTTAAAGAAGATAGCCAGGTGTTTACGAATTCTCGAGATAGCAAAATGAATCGAAATTGAACAATAAAGTACAAGATTTGGTTTGGGCCTAAAATTAGAGACAGCTGGCTTCCGTTTGGTTTTGGACGACGTGTTTTTATTGAAAGGACCAGAAGTGAAAGTAAACAATTCTGCTGATTTCATCATCTGTTTTAGATGGTGTCTGAAAATGTGATTAGTTTATGATTTGAGAAGAACGACATGCTGTTTTCGATTCCTGAAACTACACAATGTTCAGAAGAAAGTGGTTCCAAGTTCTGGACCTATCATGTGCATGTGAATGGCGTTCTTCACTGCAAGATCAGATACCGGCAGTTTGCAGACCTCAATGACAAGCTGAAAAGAGAATTTGGTGATCAAGTGCCAAGCAAGCTTTTCCCTGGCAAAAGACTATTTTCTCTTTCTTCCGATCAGTTGGAAGATCGTCGGCAAATGCTGGAATGCTATCTGCAGACCATCTTACAAGACAGTTGCATTTCGTCAAGTGAGGTTTTCAATCAGTTTTTCAGGGATGCTCAAAAAGCAACTCGTAAAGCAAACTCAGAAGAAGTTAAGCTGGACATTTATCTCATGAATGGCAACAAATTCACTGTTGATGTTTTATCCACTGATGAAACTGATGAGGTCTTGGAGAATGCAATGCGAAAAATTGGCCTATTACACCATTTCTATCACTATTTTGCTCTTTATCTTATGAAGCTTGGAGATGGCCGAAATGATAAAAGTGAAGTTGTACGAAAACTGCAAGATTTCGAGTCACCTTACCTGTCATTGAAAACATCAAAAGAGGAACACCGGATTGTGGTGAGAAAAAGTTATTGGTCTTCCAAGTACGATGATGATGTGATGGAGGATCGTATTGCACTCAACCTTCTTTATGTGCAGGTTCTTGATGATATCGAGCGTGGCTGGGTGTTGGCATCggaaaaagaaaagcaaagactTGCTTCATTAAAGGAATCAGGCTCCAAAAAAGAGTTTTTGAACCTGGCGAGAGGATTGAAATTTTATGGCTACATAATGTTCAAGCCTTGCGTTTGCGATTACCCTCAAAAGGACTCGATAGCTGTCTTCGCTGCAGGAGAAAGAGAACTTCACATGAGTGTAACAACAGATGAGAAATCCAACGTGAAAGAGGGAAGATTTCAAGTGCAATTGATCAGATGTTGGAAATTGTGTTCCATGACGCTCAAGCCAGATGAAAAGGGTGCTGGCGTTCAATTCTCATTCGAATACATTTTTGGAAAAGATAAAAAACTACAATGGATAACCGTGGACAGTGATCAAGGTATCTTGATTAGTATGTGTCTACAAGGAATTGTTGATGAAATCATTCGAGAAAAGGAGGGAAGGGCCATTCGACTGCCAAAGGCAAGACGGAAAAGTGACGTATCAACGCCAAGTCAATCACCAATAAAAACTCCCAAGAAACCCCACTTGGCTGTTTCCAACGATTTCGAGGCCAAGCCTGGAAGCTCTTCGAAAAAGAAAAATGGCGCCTCCAACAAAGTTTTTGAAGATATTGGGGACGATGAGCTTTAGCTTGATCAAAATCGGTATTTTATTTATAGTGTTTAGATTATATTTATATTTTAATGAATCGtagaattttgaaacaaatcATCCGAAATGTAACAGAAATTTAGGTTTTGTATTTCCTTCAAATATCAGCAAAATTACCAAACCAGAAAGTAAACGTGCTTATGAGAATGATTTTGCCCAGGCATGTGATAAGCGAGCATTACAGCTTTTCTACGTCTCTCTGCACAAGGGGCCCCTTCTTGTTTGAGTTTAAGCCAGAAATTCCACTCCAATACAGGATTCTTATGCTAAGTGATTTAAGAACAAATCAATCAAATGTTAGAAAGTAGTTTTACAATAAGG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5RID7	Sorting nexin-17 OS=Danio rerio OX=7955 GN=snx17 PE=2 SV=1
Q15036	Sorting nexin-17 OS=Homo sapiens OX=9606 GN=SNX17 PE=1 SV=1
Q5R4A5	Sorting nexin-17 OS=Pongo abelii OX=9601 GN=SNX17 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004337 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF18116 all species →	SNX17_FERM_C	Sorting Nexin 17 FERM C-terminal domain	Domain	Interproscan
PF21271 all species →	SNX17-31_F2_FERM	Sortin nexin 17/31, FERM domain, F2 lobe	Domain	Interproscan
PF00787 all species →	PX	PX domain	Domain	Interproscan
PF21273 all species →	SNX17-27-31_F1_FERM	Sortin nexin 17/27/31, FERM domain, F1 lobe	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR037831 all species →	Family	SNX17/27/31-like	Interproscan
IPR040842 all species →	Domain	Sorting nexin-17/31, FERM domain	Interproscan
IPR028666 all species →	Domain	Sorting nexin-17, FERM domain, N-terminal subdomain	Interproscan
IPR048767 all species →	Domain	Sortin nexin 17/31, FERM domain, F2 lobe	Interproscan
IPR036871 all species →	Homologous_superfamily	PX domain superfamily	Interproscan
IPR001683 all species →	Domain	Phox homology	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR000159 all species →	Domain	Ras-associating domain	Interproscan
IPR048763 all species →	Domain	Sortin nexin 17/31, FERM domain, F1 lobe	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12431 all species →	SORTING NEXIN 17 AND 27	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005769 all species →	Cellular Component	early endosome	Interproscan
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0035091 all species →	Molecular Function	phosphatidylinositol binding	Interproscan
GO:1990126 all species →	Biological Process	endocytic recycling	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	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
K17929	SNX17; sorting nexin-17	-	Domain-containing proteins not elsewhere classified	ko04990	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 Pelagia noctiluca 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 Pelagia noctiluca, 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 →