Gene detail

Detailed information of ENSLDHP00000037611.1 in Eunicella cavolini

Genomic Location: chr5:33534911...33554089
NR annotation: XP_028398967.1, uncharacterized protein LOC114522479 [Dendronephthya gigantea]
Species Eunicella cavolini · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSLDHT00000040857

ATGAAATATTTTGGTATATATTGCCTGACCATCATCCCACTGGTATTATGTGGTGTACCAACTCTGGATAATGTATTGAAAGCAACAAGCTGTCCAGATTGTAAAAAATTTCCAAAtgaaaattcaaattattcagaCTTTTCTCGTATTTTGAAGAAGAAGAATACGCCAACTTTTTTAGTTGGAGCAAGGAATGGTGTACTGGAGATGACTATGGATGGACAGTTGGTTCATTACACTTATGTCCCAAGCATAAAATCTGATTATGACTTTTGTATGCGACATCATGGACAAGGGACAGTTAAAAAGGAAAATGGGTGTGGCAACATGATTACCGCAATCTTCCCACAAAAACGAACTGGTTTAATTCTTGCTTGTGGCTCTAATGCTGGCCAATCGAAAAAGTGTTGGAAAGCAAATGAGACCAACGTGGTAGGGGAACCACATTCTTACACGTTTTACACAAGTGCAGAACCAGAAATGAAATATGTTATTTCAGATCCGTACATATTCCAAGGTTATGCAATACCTGATAACCCACAAAATGGACGGTTACAGAGAGTGGACGTGTACACCACTAGTGGTGGCAAACTACAGTTGCCACTAACTGATCTTGCTCCTCACTTTGTTGGCGTTTATGAGTTTGGCaaccatatttattatttcttctCTGACTTATCAGAAGaaaatagagatgacggaagtagGGTCACTTATGCTCGTGTTGGACGCTTATGTAAGTACGATAAAGGAGGCAGTAAGAGCGTACCATCTCGTGACACATTTCACACTTTCTCAAAAGCAAGGTTGTTATGTCAAGCTTCTACGAACGGAGAAATACTTCACTTCAATCATTTAGATTTAACGTCTGTTATAACTGGCGATGATGGCGAGGTTTATATATATGGTCTATTTCGCGCTGCAAAACCAGCAGATAACTTGTTCGCCATATGCCGCTATTCATTATCTGAAATTGAGAAAGCATTCTCAAGTAAAGCATACTACGAGATAGACAATGAAAAGAAGACCATAAAGCCTGTAGTGGCTGGAGATTATGATTCAAGACATAAAACGTGTAATGCAGCTCTCGACACGGAAGCTACTAGATATCCGGACTACAAAGAATACAGAAAGCGCCACGTTCACGTGTCTGTTGTTAATCCTGATAAAGGGCGACCCGTCACAATACGTAACCATGCGGCAATATCAAATATGTTGGCCGAATCGGTGACAATAGCAGACAAGTCGTACGATATACTTCGACTCTTTGATTCCAATTTGATGTACGAGCTCTTTATTCCCGCCAATTTCTTTCAAAAGGAAAATatagaaatatttttatcaACTAGAAAAATCTCCGAGGAGTCGTTCACCATTAAAGATGTGGCGAAAATCAAgTTTACTGGTGTTGAAAATCCTACTGCTTCATCGAGTGTATTCCCAAGAGCCACGACCACTGTAGCGAACAAATTCGATGTTTCAACGACGCCTAAGCCTTCCTCTACTGCAGCCGTCGGGTCCACAAGCTCGCTGACCACAACGATGGGAAATTCAACAACTAAGAATCGAACAATGCTTGGTAATTTATCAACCACTAGTCCAAAGCCTAGTTTTGATAGCATGCCAACCACTGGCCCGTTATCAAGAAAAAGTCGGTCAGGAATGCCCACAGGAACGCTCAATCCACCAACTTCACGACCGACTAGTCCTATGTCATCTTGGGATTCTTTTATTGGTCAGGAAAAGATAATCGTTGCTGCAGAGAAAAGGTTACTGTCAGTTCCTATCGCATCCTGTGGTGCCCATACTACGTGCAGAGACTGCATCGCAGCCATGAATCCTTATTGTGGTTGGCGGGATGGAAAGTGCGTACAGCTAAACTCAACTGAAAACGGGGTGTACAGACAAGATATAGAAAATGGTAACTATTCTAAAGTCTGTCCTTCAGTCAACGTTAGTTGCGAGGTCAAAGTTAGCAAGCTCATTCCCACTGCAGAAATCACACTTCAATGTACCTCGTCAGGCTTACCTGACCCACGTGTAACACACTGGTCAAAGGACGACCAGCTGTTGGATACCAACTCCAATGTTGCAATCAATGGCGGGGATCTTACCATACGACGTTATGACCTAGCAGCTGTTGGGAAATATACATGCCACGTGAGCAATAATGTGACTTCAAAAAGTTGTCCTATCGAAATTCCAgGTTCTCCCTCTAAAATGAACATTCCAGTCAACAAGGTAATAAAAAACTTTTGGCTGGTGTGCAATGCAACTGGCTACCCGCAACCAAAGGTAGTCTTGTACATACTTGGGAAAATCAAGTTGCCGGGAACGACTAAGGTTGGCGTTAAGAAAGgttcgaagtatcagttcgtGGCGAATAACGCTTTCGGCGCTGCAATTGGAGATGTTTATTATAttaTTACGAGCAAATTGGAGTTTAAAATCGATGGCGAAACGTGGAGCGATGAGCTATCCAAAACGGAAAGTCAAAAGTACATAACGTTAAACGACACAGTCATGAATGCAATCAACGAGCTGTACAAAGATCATTACTTTTTCCAAGAAGCGAATATTAGTTTTAGAAAAGGGAGTGTTATAGCTACGGTTGAACTGAGTGGTTTGAAGACCCCAACATTTGACGAAAGTGATCTAACTCATCCATTGGAAGAAGCTATTCGAAAGAAAATGCTTGGTGATTTAACTATCTCCAAAGCAGACGAAGAAAGCCCCTCGACAAAATCTCCAGATCAGCAAAGTACACTCACCCCTTCAAGAACCCCAAGTAAAAGGGAAGGTTCCAGTCCACCAGCAGGTAAACAAACCAGTTTACCAAGCACTCCTTTTCGTCCGAGCACAGGTTTGCCAAGTACTCGCAAACCAATTTTCTCCACAAGACCGGTTCTTCACGCCTTGGGGACAAAACCAGTTGCTCAGAGCTCATCATCCTCTGGAGTTCCCGTGTGGCTTTTGATGTTGTTACTCATATTGATTGGTTTGATCGTGTTTTTTGTTGGTTACTTCTGTGGTTTTCGGGGTTTCACTTGCAGGAAGTTGCAGGGCCGCGCACGACGATGTACGAAGGAGTCGTCGGTCTCCGAAGAAGATGGCGCGGAGTTGAAAGGGATGTCAAGGTCAGAAAAAACAAGAGAAAGCGAACGAATGTTACTGAGAAAAGACGAGGGAAAGAAACAAAGTCCGTCAAAGAAGAACAGTTCTACTTCAAAGAAGAAAGATCACGAGCTTTCAAACAGTGTGTCGAAACATGGTTCAGTTGAAATAAAAAAGAGCTACAACAGCGACGAAGGTATACCTGAGGTGTGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8BH34	Semaphorin-3D OS=Mus musculus OX=10090 GN=Sema3d PE=1 SV=1
Q90663	Semaphorin-3D OS=Gallus gallus OX=9031 GN=SEMA3D PE=2 SV=1
Q9H3T2	Semaphorin-6C OS=Homo sapiens OX=9606 GN=SEMA6C PE=1 SV=4

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002287 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01437 all species →	PSI	Plexin repeat	Family	Interproscan
PF01390 all species →	SEA	SEA domain	Family	Interproscan
PF07679 all species →	I-set	Immunoglobulin I-set domain	Domain	Interproscan
PF01403 all species →	Sema	Sema domain	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002165 all species →	Repeat	Plexin repeat	Interproscan
IPR036364 all species →	Homologous_superfamily	SEA domain superfamily	Interproscan
IPR003598 all species →	Domain	Immunoglobulin subtype 2	Interproscan
IPR036179 all species →	Homologous_superfamily	Immunoglobulin-like domain superfamily	Interproscan
IPR027231 all species →	Family	Semaphorin	Interproscan
IPR013783 all species →	Homologous_superfamily	Immunoglobulin-like fold	Interproscan
IPR001627 all species →	Domain	Sema domain	Interproscan
IPR000082 all species →	Domain	SEA domain	Interproscan
IPR013098 all species →	Domain	Immunoglobulin I-set	Interproscan
IPR016201 all species →	Domain	PSI domain	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR007110 all species →	Domain	Immunoglobulin-like domain	Interproscan
IPR036352 all species →	Homologous_superfamily	Sema domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11036 all species →	SEMAPHORIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0001755 all species →	Biological Process	neural crest cell migration	Interproscan
GO:0005887 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007411 all species →	Biological Process	axon guidance	Interproscan
GO:0030215 all species →	Molecular Function	semaphorin receptor binding	Interproscan
GO:0030335 all species →	Biological Process	positive regulation of cell migration	Interproscan
GO:0045499 all species →	Molecular Function	chemorepellent activity	Interproscan
GO:0048843 all species →	Biological Process	negative regulation of axon extension involved in axon guidance	Interproscan
GO:0050919 all species →	Biological Process	negative chemotaxis	Interproscan
GO:0071526 all species →	Biological Process	semaphorin-plexin signaling pathway	Interproscan
GO:0005515 all species →	Molecular Function	protein 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

No KEGG orthology assignment for ENSLDHP00000037611.1.

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 Eunicella cavolini 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 Eunicella cavolini, 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 →