Gene detail

Detailed information of ENSQNNP00000001048.1 in Candelabrum cocksii

Genomic Location: chr10:2468091...2490019
NR annotation: XP_047141342.1, AP-1 complex subunit beta-1 [Hydra vulgaris]
Species Candelabrum cocksii · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSQNNT00000001122

ATGACagattcaaaatatttcaccaCCACCAAGAAGGGTGAGATTTTCGAACTCAAGGCTGAGTTGAACCAACATAAAACCGATCGCAAGAAGGAGGCTGTGAAAAAGGTTATTGCGATTATGACTGTCGGAAAAGATGTAAGTGCACTTTTCCCTGATGTCATTAACTGTATGCAAACTGATAACTTGGAGTTGAAGAAACTTGTTTACCTGTATCTCATGAACTATGCTAAATCCCAACCGGACATGGCGATTATGGCTGTGAACACATTTGCTAGAGATTGTGATGATCCAAACCCCCTGATTCGAGCGCTAGCAGTACGGACAATGGGATGCATTCGTGTTGACAAAATCACCGAGTACCTCTGTGAACCACTGCGCAAGTGTTTAAAGGACGAGGATCCATACGTCAGAAAGACGGCTGCTGTTTGCGTTGCCAAGCTGCACGATATCAACTCAACATTGGTTGAAGATCAGGGCTTCTTAGAGTTACTTAGAGATCTGCTGTCTGATTCCAATCCAATGGTTGTCGCCAATGCGGTTGCTTCGTTGACGGAAATCTCTGAATCGTCGCCAAGTGCCAGTCATTATTTCGAGATGAACTCCGCAACAATCAACAAACTGCTGACCGCTTTAAATGAGTGCACAGAatgGGGTCAAATCTTCATCTTGGATTCACTTGCTAATTACTCACCTAGGGATGAGAAAGAGGCTCAGAGCATCTGTGAACGTGTGACTCCACGATTGTCTCACGCCAATGCTGCTGTAGTTTTATCTGCTGTCAAAGTTTTGATGAAGCTGATGGAGATGATGCCGGCTGGCACAACGTACATGCAGAATCTCGCAAAAAAACTATCACCACCTCTCGtgACATTACTTTCTGCTGAACCGGAAGTTCAATATGTGGCGTTGAGAAATATCAACCTCATTGTCCAGAAAAGGCCAGACATCCTGAAGCAGGAGATTAAAGCATTCTTTGTCAAATATAATGATCCGATATACGTGAAACTGGAGAAGCTTGACATCATGATTCGCCTGGCTTCACAACAAAATATAGGTCAAGTGCTTGCAGAACTGAAAGAGTATGCGACGGAAGTCGATGTGGACTTTGTAAGGAAATCTGTAAGAGCCATTGGGCGATGTGCAATTAAAGTCGAGCAATCAGCTGAGAAGTGCGTGACAACATTGCTCGACTTGATCCAGAACAAAGTGAACTACGTTGTGCAAGAAGCCATCGTTGTTTTAAAGGATATCTTTCGACGTTACCCAAACAAATATGAGAGTATCATTTCCACATTGTGCGAGAATCTGGACTCTTTAGATGAACCTGAAGCCAGGGCTTCTATGATCTGGATCATTGGTGAGTACGCAGAACGTATCGACAACGCTGATGAACTTCTCAGCACGTTTTTGGATGGTTTCTCCGACGAGAACACTCAGGTCCAGTTGCAACTTTTGACTGCCATCGTGAAGTTGTTCTTGAAACGGCCTACCGATACACAAGAGCTCGTGCAACAGGTCCTTAGTCTTGCCACCCAGGATAGTGACAATCCCGATCTGCGGGACAGAGGTTACATCTACTGGAGGTTGCTCTCTACAGACCCAGCTGCGGCTAAGGATGTTGTGCTGGCAGAGAAACCGTTAATCTCTGAAGAAACAGATTTGTTAGAGCCAACATTACTTGATGAGCTCATCTGCCATATTTCCACTCTTGCATCTGTCTACCATCGGCCTCCGAGTTCTTTTGTGACGGGGAAATCTGCCGCCCGGCGTTCTGTCTTACCCTCGGTTACGGCTTCGGATGAGGGGACAGAAGTTGACCAGGTCGCGCCAACGCTATCTCAGGTTGCTAGTCAACCAGCACCCCCTCAACAACCTCAACCGTCATCGTTACTCGGGGATCTCTTGGATATGGAGCCACCTCCACCCACCCAGCCAACCATACAAACGAGCGTTCCCCAACCTGCACCAGTGCTTGACTTGCTTGGCGGAGATCTCAGTATGTTGACACCGCCATCTCAGTCCATTCAGCCACCCGCTCAACCAGCAGTCGGGTTGAATGACCTCTTCAGTTTGCAGGGAGCGTTACCGGGATCTGGGTACAGTGCCCCAAAACAGGTTTGGTTACCGGCTGTTAAAGGAAAAGGTCTTGAAATCACAgGTACGTTCTCCCGACGGCAAGGCCAGACGTTCATGGACATGACGTTTACCAACCGGGCAATGCAAGCCATGGGTGCGTTCGCCATCCAGTTTAACAAGAACAGCTTTGGGTTGACACCAAGCACCCTGCAGGTTCAATCACCGCTTACGCCAAACACCTCCACGGAGACCTCACTTGCTCTTGGAATGGCGGGCCCTATATTAAAGATGGAACCCATCAATAACGTGCAAGTGGCCATCAAGAATAACATTGACGTGTTTTACTTCAGTTGCCTGGTACCTGCAAATGTTCTATTCATTGAAGATGGCCAAATTGAGAGGAAGTTGTTTCTATCTACTTGGAAAGAGCTTCCACAGAATTGTGAAATCCAGACCAGTATTACCACCAAAGCGCTTTCTTCAGaACACTACCAAAGTCTACTTCAggcgaacaacatatttactgTTGCAAAGAACACCGTTGATGGACGGGACATGCTCTATCAATCCATGAAGTTTACAAATGCGATTTTCGTTCTGTCTGAGTTAAAGATCATCCCTGGAGACCCCGTTGTTCAGCTTTCTGTAAAAACACGAGCAATGGACGTGGTTGGCATGGTGCAGAGCGTGTATCAacaattgctccagctgtaa

Transcript

ENSQNNT00000001122

AATTGTTCCGAGAAACGCCGATAAAATAATCATCAATAATTTGTATGCTTTCAAAGAAATTAGTTGCAGTGAGACTACTTTCAGTATGTTtccaaaatttagaataaagtTTGCCATTGTTTATACTTTTCTACTCGGTAACTttgaaatttgataaactCGATGAAGGTTTTGCTGacaattgcctgaatttgctCCGTTTGTGTTTTTCGAAAGGATAGTAGATAgtaaaagtattttgtttatttgaagACGAAATTGAAGAATGACagattcaaaatatttcaccaCCACCAAGAAGGGTGAGATTTTCGAACTCAAGGCTGAGTTGAACCAACATAAAACCGATCGCAAGAAGGAGGCTGTGAAAAAGGTTATTGCGATTATGACTGTCGGAAAAGATGTAAGTGCACTTTTCCCTGATGTCATTAACTGTATGCAAACTGATAACTTGGAGTTGAAGAAACTTGTTTACCTGTATCTCATGAACTATGCTAAATCCCAACCGGACATGGCGATTATGGCTGTGAACACATTTGCTAGAGATTGTGATGATCCAAACCCCCTGATTCGAGCGCTAGCAGTACGGACAATGGGATGCATTCGTGTTGACAAAATCACCGAGTACCTCTGTGAACCACTGCGCAAGTGTTTAAAGGACGAGGATCCATACGTCAGAAAGACGGCTGCTGTTTGCGTTGCCAAGCTGCACGATATCAACTCAACATTGGTTGAAGATCAGGGCTTCTTAGAGTTACTTAGAGATCTGCTGTCTGATTCCAATCCAATGGTTGTCGCCAATGCGGTTGCTTCGTTGACGGAAATCTCTGAATCGTCGCCAAGTGCCAGTCATTATTTCGAGATGAACTCCGCAACAATCAACAAACTGCTGACCGCTTTAAATGAGTGCACAGAatgGGGTCAAATCTTCATCTTGGATTCACTTGCTAATTACTCACCTAGGGATGAGAAAGAGGCTCAGAGCATCTGTGAACGTGTGACTCCACGATTGTCTCACGCCAATGCTGCTGTAGTTTTATCTGCTGTCAAAGTTTTGATGAAGCTGATGGAGATGATGCCGGCTGGCACAACGTACATGCAGAATCTCGCAAAAAAACTATCACCACCTCTCGtgACATTACTTTCTGCTGAACCGGAAGTTCAATATGTGGCGTTGAGAAATATCAACCTCATTGTCCAGAAAAGGCCAGACATCCTGAAGCAGGAGATTAAAGCATTCTTTGTCAAATATAATGATCCGATATACGTGAAACTGGAGAAGCTTGACATCATGATTCGCCTGGCTTCACAACAAAATATAGGTCAAGTGCTTGCAGAACTGAAAGAGTATGCGACGGAAGTCGATGTGGACTTTGTAAGGAAATCTGTAAGAGCCATTGGGCGATGTGCAATTAAAGTCGAGCAATCAGCTGAGAAGTGCGTGACAACATTGCTCGACTTGATCCAGAACAAAGTGAACTACGTTGTGCAAGAAGCCATCGTTGTTTTAAAGGATATCTTTCGACGTTACCCAAACAAATATGAGAGTATCATTTCCACATTGTGCGAGAATCTGGACTCTTTAGATGAACCTGAAGCCAGGGCTTCTATGATCTGGATCATTGGTGAGTACGCAGAACGTATCGACAACGCTGATGAACTTCTCAGCACGTTTTTGGATGGTTTCTCCGACGAGAACACTCAGGTCCAGTTGCAACTTTTGACTGCCATCGTGAAGTTGTTCTTGAAACGGCCTACCGATACACAAGAGCTCGTGCAACAGGTCCTTAGTCTTGCCACCCAGGATAGTGACAATCCCGATCTGCGGGACAGAGGTTACATCTACTGGAGGTTGCTCTCTACAGACCCAGCTGCGGCTAAGGATGTTGTGCTGGCAGAGAAACCGTTAATCTCTGAAGAAACAGATTTGTTAGAGCCAACATTACTTGATGAGCTCATCTGCCATATTTCCACTCTTGCATCTGTCTACCATCGGCCTCCGAGTTCTTTTGTGACGGGGAAATCTGCCGCCCGGCGTTCTGTCTTACCCTCGGTTACGGCTTCGGATGAGGGGACAGAAGTTGACCAGGTCGCGCCAACGCTATCTCAGGTTGCTAGTCAACCAGCACCCCCTCAACAACCTCAACCGTCATCGTTACTCGGGGATCTCTTGGATATGGAGCCACCTCCACCCACCCAGCCAACCATACAAACGAGCGTTCCCCAACCTGCACCAGTGCTTGACTTGCTTGGCGGAGATCTCAGTATGTTGACACCGCCATCTCAGTCCATTCAGCCACCCGCTCAACCAGCAGTCGGGTTGAATGACCTCTTCAGTTTGCAGGGAGCGTTACCGGGATCTGGGTACAGTGCCCCAAAACAGGTTTGGTTACCGGCTGTTAAAGGAAAAGGTCTTGAAATCACAgGTACGTTCTCCCGACGGCAAGGCCAGACGTTCATGGACATGACGTTTACCAACCGGGCAATGCAAGCCATGGGTGCGTTCGCCATCCAGTTTAACAAGAACAGCTTTGGGTTGACACCAAGCACCCTGCAGGTTCAATCACCGCTTACGCCAAACACCTCCACGGAGACCTCACTTGCTCTTGGAATGGCGGGCCCTATATTAAAGATGGAACCCATCAATAACGTGCAAGTGGCCATCAAGAATAACATTGACGTGTTTTACTTCAGTTGCCTGGTACCTGCAAATGTTCTATTCATTGAAGATGGCCAAATTGAGAGGAAGTTGTTTCTATCTACTTGGAAAGAGCTTCCACAGAATTGTGAAATCCAGACCAGTATTACCACCAAAGCGCTTTCTTCAGaACACTACCAAAGTCTACTTCAggcgaacaacatatttactgTTGCAAAGAACACCGTTGATGGACGGGACATGCTCTATCAATCCATGAAGTTTACAAATGCGATTTTCGTTCTGTCTGAGTTAAAGATCATCCCTGGAGACCCCGTTGTTCAGCTTTCTGTAAAAACACGAGCAATGGACGTGGTTGGCATGGTGCAGAGCGTGTATCAacaattgctccagctgtaacggaacacagtttttcCATTTAATTCTTGAACCGATTTATGTTGACATTTTTTACGTAGGTGATTTTTGTTGTAGCTTTGAATTatgatttgaaatatattgcttTTCTGGTAAAGTTC

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P63010	AP-2 complex subunit beta OS=Homo sapiens OX=9606 GN=AP2B1 PE=1 SV=1
Q9DBG3	AP-2 complex subunit beta OS=Mus musculus OX=10090 GN=Ap2b1 PE=1 SV=1
P62944	AP-2 complex subunit beta OS=Rattus norvegicus OX=10116 GN=Ap2b1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001488 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09066 all species →	B2-adapt-app_C	Beta2-adaptin appendage, C-terminal sub-domain	Domain	Interproscan
PF02883 all species →	Alpha_adaptinC2	Adaptin C-terminal domain	Domain	Interproscan
PF01602 all species →	Adaptin_N	Adaptin N terminal region	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012295 all species →	Homologous_superfamily	TBP domain superfamily	Interproscan
IPR008152 all species →	Domain	Clathrin adaptor, alpha/beta/gamma-adaptin, appendage, Ig-like subdomain	Interproscan
IPR026739 all species →	Family	AP complex subunit beta	Interproscan
IPR016342 all species →	Family	AP-1/2/4 complex subunit beta	Interproscan
IPR015151 all species →	Domain	Beta-adaptin appendage, C-terminal subdomain	Interproscan
IPR013037 all species →	Homologous_superfamily	Clathrin adaptor, beta-adaptin, appendage, Ig-like subdomain	Interproscan
IPR002553 all species →	Domain	Clathrin/coatomer adaptor, adaptin-like, N-terminal	Interproscan
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan
IPR011989 all species →	Homologous_superfamily	Armadillo-like helical	Interproscan
IPR009028 all species →	Homologous_superfamily	Coatomer/calthrin adaptor appendage, C-terminal subdomain	Interproscan
IPR013041 all species →	Homologous_superfamily	Clathrin adaptor, appendage, Ig-like subdomain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11134 all species →	ADAPTOR COMPLEX SUBUNIT BETA FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0016192 all species →	Biological Process	vesicle-mediated transport	Interproscan
GO:0015031 all species →	Biological Process	protein transport	Interproscan
GO:0030276 all species →	Molecular Function	clathrin binding	Interproscan
GO:0030131 all species →	Cellular Component	clathrin adaptor complex	Interproscan
GO:0030117 all species →	Cellular Component	membrane coat	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
K12392	AP1B1; AP-1 complex subunit beta-1	-	Membrane trafficking	ko04131	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 Candelabrum cocksii 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 Candelabrum cocksii, 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 →