Gene detail

Detailed information of ENSAPQP00000027883.1 in Leptogorgia sarmentosa

Genomic Location: chr4:20306190...20318254
NR annotation: CAB4002441.1, Hypothetical predicted protein, partial [Paramuricea clavata]
Species Leptogorgia sarmentosa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSAPQT00000031198

TTGAAGGAACTACAAGACAGGCAAAATGCCTTGCTAGATCTGCAGCGCCGTGCAGAGAATCAGTTAAAAGAAGCTGAAGCAGAGGGAAGGCGTATTTCAAGTCTGATGAATGGGCATGCCATCGAAAATGGAAGTGTTAGTGGTAGAAGTAGAAGTGGTACGGAGAGATCGGATGACTCACGTTCTGCCCAGCCTGCTGCTGTCGGAGGCGCAGTTAATCGAGGGGCATCTGCAACTGGTTTACGCTACCCGAGTAGAGAACAGGCCCAGCCAAACAGAAAACCGTCTAATGAGCAAAAACCTGAAAACTTCAAGAACCGAAGATTACCTGGTGAACAGGCTCAAGCTTTAGCTGCAGCAGACGCCGCTCAGGAACGACTTGAACTGGAAAGTAAGCTAATGGATTTGCAAGCAAAGAAAGAACAAATGGATGCACTTGTAGCACAGTTACAGCAAATTAGGGAAATGCAGCTGGGAAAAGAAATGGGGCTTTCACAAGAGAGGAACGTTAATGAGACAATTGAGAATGGAGAGGACGATGTACCTTTTGCCACAAGATCTGCAAAGGATACTGGAGACaatgttgatgatgaaaaGATATTGGAAGCGTTGCAACTACACAAAAAGTTGAGAAAACTTCAAGACGTGAGAGACAAGCTTGAAAGTCTTAAAGAGCTTTTCGAAGAACAGCAGGAACGCTCTGAAGGGGAGAGTGACACAGTAGCTGCAGTAAATAGACCACAACGAGCACAGCAGTCGAGAGAAAATCAAGGTGCCGTATCTCAACCACGTGGTGCTGAGGGTGGGATAATTTCTGATGATATGCCGCCTGGTAGCTTTGACTGGATTTTGAATTCTGGCATTGATGACCCTGAACTTTTGTCTAAACTAAGGCAAGTGAAGGCCGCAAAGGAGAGAGTTGCTAACCTCAAGCAACGGATTGAACAAAATAACGTTGCACCTCCATACGGCAGAGCTGAAGCTGTTGCAAGCGTAACGCAAGCACGCGCCGCTCAGGATGAAGATTCCGCCCTTCAAACAGATAATGAGACAACTGGTTCTGTTTCAAGTTCTCTTATGTGGCAGGAAGATCCGGAGTTTCAAGAGAAACTTCGAAAACTTAATGCTGCTcgaaaaaaacttaaaaaatTACAGGAACTTGTCAAGAAAACAGAGGAGCTGCCTGCAGGGCCGAATGGTCGACCATACTTACCTGCAGAAATTGACGAAATGAGTTTCAGCTCAGATGAAGATGATGCATCAACTGCAACAGAAGGTGCAGGAGAGGCCAGCCATGCTCATAGGAATAATATACTACTAATGCAAGACGATGGGTTTGGTGACAGTGAGCTTGAGTACATGGATAAACTAACACAACAGCGAGCTGCCTTAAGTCATCTCTTagcagaaaaacaaaaattacttGAGACACAGGAACATTTGAACAGGCTCCGACAAAGTGATGCGATGACACAGACAAGACAATTAGACAGACATAAGCCACTTGAGAGCTTTATTCACAACCCAACTGAAACAACCACATCACGACAAGGTGCGACTGCAGATTCCACCACACAGACATTAGTGTCGTCAGATCCACGATGTGACAAATATCCTCAGTCAGGTACTTCAACGTCGAACACGTTGTTGTGGAGAGAATTACGACGTCAACGTGAACTGCAGGaacagaaattgaagaaacGTAAAGAAAGGTTGATGTTAGAACGAAAAGGTAGAAGATCAGGATTGGAGAATGCTTCTGAGGATGAAGGTTTTGGTCGTAGTACATTGAGTGCAGATATTACCACAGCAACCTGGGGTGGATCAACTCAGATGAGCAGCACACAGAATGATTCCGCTGTATCCGAAGGCTCATCACACGATAGTGATGTAGAGATATTAGTGGAGGTTGAAGATGATGCTTCAGATGGTATTGTTCAAGCTGAAGAGGAAGAAGAAGCAAATTCTGAAGTTGACATATATCCAACTACATCCACGGCTAACAGAACAGCAAGCACGAAAAGTGGAAGAAAACAGAATGCAAATCAAAAACGTTTGCTATTTGAAGGGTTACGAAAGCAAGACTTAGAACGACATGAAAGGTTCAAAGGTTGGCAGAACTCCTTGTTTCCATCAGGAAATAAAAAGAGCACCAAGAAACCACAGCGTTTCTCGAATCCCGAAGAACTTAGTGAAGAAGATCAATACAGTGCTCGAGAGAGATCAATGTGGGAGAGACAGTTCAATGTTTTACAAGGACAGTTGGAGAACACCACTTCACTTTGCAATACATTATTACGGGATCAACAAACCCTTATATCCGTTCTTTTGAATCGTAGTGAAACTACCCAGCCTTCAAGATTTgGTCCAAATTCCTTCAGTCAGTACCAACAACGACAACAAGAAGCATTACATGGAATTCAGAATTATTTCGAACAACAACGTTTCCTTGTGCAACAACAGCAAATGCTGCAGAATCTTACCGAGTGTTATTCACAGATGCAACAACAGCACGAAGACATGTTACATTTACAGCAAAGTTTTGCGCAGCTGTTCACGCACACATCAGAAGAACGAACTCCGAGAGCTCGACCTGCGACAGCTGACAATCCTCCAGCATCAACATTGGGAAATTCTCGTACTCCCAATTCATTTAGTTTTCAACCATCTACCTCGCTCAGTTATCGCCCACAAGATTCTTTACGTGAAACACCTCCCCCTTCGCCCTTCACAAGTACACAGgtGAAGCCATCAGTTGAACGTCATGTTAGAGCTGCAGGTTCTTCAACATCTCAACAGCCCGCTTCTGCATCTATGTCATTCCCCTGGCTACCTGGACTTCGTAATAGACAATTCCAGTTTGTGGGAAGCACCAATCCCGACACAGGGGTCCCAAGTCCTGAAGCAAGTACTAGGCAAGCGTATTACGAAGGAGCTGGCTCAGTAAAACCTGTTGCAGCCCGAGTTGTTAGTGCCACAAATGCTAATGCTGAAAATCTTTCGCCTTATAACCCGGTAGCATATAGTGATTCCAAAGGTAGTGGTAGTAGCAATGTCGTAGTTGGCAAACAGTTTCCTACACCTCTCCGTGCCACAGCAGCGGCACAACTGGCTGAACAGGATAAATCAAACTGGCGTGGAGTAAAGAGAAGAAGACAAGACGACAAAATGGAGACTGACTCTATTTCATCACATCAGTCAAGTTTACCAGGAGACTCAGAAAGGCCTGGCACGGAATCTGACGCACAGAGTGATTACTCGTTGTTCGAAGCTCTTCGAGACTCTATTTATGCTGAAGTTGCAACTCTTATATCACAGAATGAATCCAGACCTCATTTTCTGATTGAGCTGTTCCGAGAATTGCAGCTATTGGGATCAGATTATCTGCGACAACGAGCACTTTATTCGTTGAGAGATTTAGTCACTCGCTTTCTGAAGGACGACCCACCGGGAGGAACCATTGAATCTGCTATGGGTCCATATTCCTGGTTGGCATCCGCGTCGGAGCAAACACCCAGTGAAAGTGCGGGCTTTTCTGAAACTGATCAAGACCAGGACAGAATGAAAGTGCCAGAAATCTCTACACAGGGTATCTATGACTATGTCGAGGCCGTGGATTCCGGGAGTTCCCTTTCCACACCAAACAGTGGCAACCACGAACCTTTTGCTTCGGAGTTTCTTGGTGAAACTGTCATCCACTTGGACAAGGCATTGAAATCGATGCGAGAACGTGATCGCCGTGACTCAGAACGTTCGAGCACCACGGGAAATGAAGGTGCAACTGGTGGTGGGCAAGGTGAAGCAAGTTCCGCTGGTGACGTAGCCAGTGAATCATCATTACCAGACATTCAATATCCAAAGATTGATACCCAAGCACTGGATCGTCAAATAAAGAAGATTATGGCGGAAGTTATTCCGTGTTTGAACGATCACATGGAAGACACGTGCTCAGTCGAGTTACTGGAGTACATTAGAAAATTGGTTATGGGTGTGGTACAACAGAAAAATGAAGCAAAGGAGTTCAGCAGATTCTTCCACAAACAGTTGGAATCCATATTACAGGATTCTCTAGCGAAGTTTATTGGAAAGCGTATGAAGGACTGCGGTGAAGATCTGCTTGTAGACATTTCAGAAATATTGTTTAATGAGCTGGCATTTTACAAGCTGATGCAGGAGTTAGATGGgGGAGCAAAGGCAAAATTCTTCAACAGGGAACAGAAGTATCGCATTGAGAATGCAGCAGCTCGCAGCAGCCGTAATCAAGAAGGAAATAATGCGGACACCAGTGGAAACACTGCGGCAGAAGTGAAAGATGAGAAAGAAGTTGAGAATGAAAATGCTGAAGACGAGGAGGATGACGCCTCCTCAAGTTCATCATCAGAATGGCAAGTTGTGGATGAAACACCTGCGGATAAACCACAGGATATGATGTCACGTGAGCAACTTGAACAGGATGAAGAAACATTGGGAAGAGATAGAGATGACGCTATGGCAGAAGAATTCGACGAAACACGAAAGTGTTCCATCAAGATTGTCGAACTTTCGATGAGTGAATCAAGACCACTAGCTCGTGGCAGTGACGATGAAGACGAAAGTGAGGTGGAAATAGCTGGAGACGTAGATCAAAATGAAGAGAATGCTGAAGGGACAGTTTGGAATGGAAGTGTGAACGGTGCTCATCACAACACGTTACCAAGTCAAATGGCAGCAGCTGAAGAAGCACACGCTGAAGATGAGGAAGGGGCAAGTGGCGGAAATGAAAAACAGGAAGTAGACCAAGATGAAGATCTTCCAACAAAGTTTACAGGCTTGACTGAAGCGGATTTACAGGTTAAGATAGCAGAAGAACAAAGTCGTAATGATGGTATTCAAGGAATTGTAGTGTCCATGGACGACGGAGATGGTAGGTTTCGGATGTGCTTCGTAGAAGGATCCGCTTTGGTGAATGGAGATGCGACTGATGCGCCTGAAAATTAA

Transcript

ENSAPQT00000031198

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8AV28	Pericentriolar material 1 protein OS=Gallus gallus OX=9031 GN=PCM1 PE=2 SV=1
Q15154	Pericentriolar material 1 protein OS=Homo sapiens OX=9606 GN=PCM1 PE=1 SV=6
Q9PVV4	Pericentriolar material 1 protein OS=Xenopus laevis OX=8355 GN=pcm1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002247 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for ENSAPQP00000027883.1 in Leptogorgia sarmentosa.

InterPro

InterPro term	Type	Description	Source
IPR024138 all species →	Family	Pericentriolar material 1 protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14164 all species →	PERICENTRIOLAR MATERIAL 1-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005813 all species →	Cellular Component	centrosome	Interproscan
GO:0005814 all species →	Cellular Component	centriole	Interproscan
GO:0007098 all species →	Biological Process	centrosome cycle	Interproscan
GO:0034451 all species →	Cellular Component	centriolar satellite	Interproscan
GO:0034454 all species →	Biological Process	microtubule anchoring at centrosome	Interproscan
GO:0035735 all species →	Biological Process	intraciliary transport involved in cilium assembly	Interproscan
GO:0036064 all species →	Cellular Component	ciliary basal body	Interproscan
GO:0060271 all species →	Biological Process	cilium assembly	Interproscan
GO:0071539 all species →	Biological Process	protein localization to centrosome	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
K16537	PCM1; pericentriolar material 1 protein	-	Cilium and associated proteins	ko03037	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 Leptogorgia sarmentosa 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 Leptogorgia sarmentosa, 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 →