Gene detail

Detailed information of BRAKERXEIP00000046209.1 in Muricea muricata

Genomic Location: chr4:4009117...4018503
NR annotation: CAB3981474.1, T-complex 1 subunit delta-like [Paramuricea clavata]
Species Muricea muricata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERXEIT00000046209

ATGCCTGAAGCTAAGACTGCGGGAAAACCGACGAAATCAAACCGTGAAGTCtataaagacaaagaaaaaccTACGGAAATTCGATTCACGAATATAAATGCAGCAAAAGCTGTTGCTTCTGCTATTCGGACAAGTCTTGGTCCCAAGGGGATGGATAAAATGATCCAAAGTGGAAATGGAGATGTCACGATCACCAATGATGGAGCAACTATCTTAAAACAAATGCAAGTCTTCCATCCAGCAGCTAAAATGCTGGTAGAACTGTCAAAAGCTCAAGATGTTGAAGCTGGTGATGGTACCACAACAGTTGTTGTAATTGCTGGAAGTTTACTAGATGCAGCAGCAAGATTGCTTGAGAAAGGTATCCACCCAATGAACATATCAGATGCATTTGGTGTTGCATGTGAGAAAGGAGTTGAGATATTAAAGAATATTGCAATCCCAGTTGAACTAAATGACCGAGAGTCCTTGCTAAAAAGTGCTTCAACATCTCTCAATTCAAAGGTTGTATCTCAATACTCAAATCTTCTAGCACCAATATCAGTCGATGCCGTGATGAAGGTTATTGATCCAAAAACTGCCAGTAATGTTAACTTAAATGACATCAGAGTCATCACAAAACTAGGTGGCACAGTGGAAGACACAGAGATGGTGGATGGTTTAGTTTTAGAACAGAAAATATCTCATCTGGCTGGTGGAGTATCAAGTATAGAAAAAGCAAAGATTGGTCTCATTCAGTTTTGTTTATCAGCTCCAAAAACAGATATGGATAACCAAGTCATCGTGTCAGATTATACACAGATGGACCGTGTTTTACGAGAAGAGAGACAGTACATCCTAGATTTGtgtaaaaagataaaaaaggCTGGATGCAATGTACTTCTGATTCAAAAGTCCATTCTAAGGGATGCTATAAACGACCTAGCtctacattttttaacaaaaatgaaaattatgGTACTGCGTGATATTGAAAGAGATGAAGTAGAATTTATTTGTaagAGTCTTGGATGTAAACCTGCTGCGAGTGTTGACCATTTTACACCTGATGTACTGGCGTCAGCAGAACTCGTTGAAGAAGTGTCCACAGGCGCTGCTAAAGTTGTAAAGATAACAGGCATAGCAAATCCTGGCAAGACAGTGAGCATATTGGTTCGTGGTTCAAATAAACTTGTTCTTGAGGAGGCTGAACGTTCGTTACATGATGCTCTCTGTGTAGTAAGatgtcttgttaaaaacagAGCGCTAATTGCTGGTGGCGGAGCACCTGAGACAGAACTCTCCATAAATCTCGCACAATATGCAAACACTCTCTCTGGCATGGATTCCTACTGTGTACGAGCATTTTCAGAGGCAATGGAAGTTGTCCCTTATACCTTGGCAGAGAACGCTGGTCTCAATCCCATTGCAACTGTCACTGAGCTCAGGAATAAGCATGCGCAAGGAGAGAAGAACGCTGGTATAAATGTCCGCAAGGGGACAATTACCAACATACTGGATGAGAATGTTCTTCAGCCTCTGTTAGTGTCAACCAGTGCATTGACTTTAGCTTCAGAAACTGTACGAAGTATCCTGAAAATTGATGATATTgCAGCAGAATTTAAAGAAAAGGGAAACAAGGCACTTAAAGACGGCAATGTAACCGAGGCAATTCAAAACTATACTGAAGCAATCAAATTTGACCCAAATAATCATGTATTTTACAGTAATAGATCAGCAGCATATGCTAAGGACAAGTGCTATGAAGAAGCTTTAGCAGATGCTAAGAAGACTGTTGAGTTAAAACCAGATTGGCCAAAGGGTTATTCCCGGTTAGGTGCAGCATATTCATTTCTTTCCAATCCTGAAGAAGCAGAAAAGGCATATGAGAAAGGACTAGAGCTTGATCCAAACAATGCCCAAATAAAGGAAGACTTAGCAACACTGAGAAAAACCTTTTCTGGTCCTGGTAAAAGTGTTCCATTAGATAATCCATTCAATAGTCCAGATCTTATTCCAAAACTTGCATCAAATCCAAAAACTGCTGCATATTTGCAAGACAAAAGCTTTCAACAGATCTTAAAAGAACTAAGAACAGACTCAAAGTCACTTGGAAAacaCTTGCAAGATCCTCGTGTTATGGAAACGTTAGAAGTATTACTTAACATCAGCGTGTACAAATCAGAAGAGCAAGAGGGTAAACCAACATCATCAGCAACAAAAGAAGAGAAACAAAATCCTAAAAAACCTAAACATAAAGAAGAACCAAAGAAAGATGACATAAGCCCAGAGAAGAAAGAAGCTCTCAAAGAAAAAGAGCTTGGTAACACTGCCTATAAAAATAAAGACCTCGATACTGCTATACAACATTACACCAAAGGATACAAGTTAGATCCAACCAATGTTACACTGTTAACAAACCGAGCAGCTGCCTACTTTGAAAAAGAAGAATATGATAAATGTATTAAAGATTGTGAACTGGCTGTAGAGCAAGGGAGAGAACACCGAGttgaattcaaaataattgcTCGTGCCCTAGAGAGAATAGGAAATGTATATCTAAAGCAAGATAAATTGGAAGAAGCACTTGAATATTTTGAAAGATCCTTGACTGAGTTTCGTTCTGATGCTGTTGTAAAGAAGACCAACAAGTTAAAGAAGGACATACAAGAAAAGGAGAAGTTAGCTTATATAAACCCTGAGCTGGCAGAAGAAGAACGTGAAAAAGGAAATGAGTTATTTAAAAAAGGGAAATTTCCAGAAGCAATGAAACATTATACTGAGGCTATAAAAAGAAATCCTAGTGATCCAAAATTGTATAGCAATCGGGCTGCTTGTTATCAGAAGTTGGCTGAAATTCGTCTTGCTGTGAAGGACTGTGATGAATGCATAAAACTGGACCCAAAATTTGTCAAGGGGCATACAAGAAAAGGTGCATGTCATTTTGCAATGAAAGAATACAGCAAAGCCACGGATGCCTACAATAAAGCCTTAGAACTTGATCCCGATAACAAGGAAGCCAAGGAAGGCCTGCAAAGATGTTATGTCACTTCCACAACACCTTCATCAGATCCTGAGGAGGTTAAAAAGAGAGCAATGGCAGACCCTGAAGTACAGGAAATCTTAAGTGATCCAGCCATGAGAATGATTCTTGAGCAAATGACAGAAAATCCTGGAGCAATCCAAGACCATCTTAGAAACCCAGAcatagcaagaaagattcagaaGTTAATGGAAGTTGGTGTACTACAAATGAGATGA

Transcript

BRAKERXEIT00000046209

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q2T9X2	T-complex protein 1 subunit delta OS=Bos taurus OX=9913 GN=CCT4 PE=1 SV=3
P50991	T-complex protein 1 subunit delta OS=Homo sapiens OX=9606 GN=CCT4 PE=1 SV=4
Q5R637	T-complex protein 1 subunit delta OS=Pongo abelii OX=9601 GN=CCT4 PE=2 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001947 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00515 all species →	TPR_1	Tetratricopeptide repeat	Repeat	Interproscan
PF13181 all species →	TPR_8	Tetratricopeptide repeat	Repeat	Interproscan
PF13424 all species →	TPR_12	Tetratricopeptide repeat	Repeat	Interproscan
PF13414 all species →	TPR_11	TPR repeat	Repeat	Interproscan
PF17830 all species →	STI1-HOP_DP	STI1/HOP, DP domain	Domain	Interproscan
PF00118 all species →	Cpn60_TCP1	TCP-1/cpn60 chaperonin family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR019734 all species →	Repeat	Tetratricopeptide repeat	Interproscan
IPR002194 all species →	Conserved_site	Chaperonin TCP-1, conserved site	Interproscan
IPR017998 all species →	Family	Chaperone tailless complex polypeptide 1 (TCP-1)	Interproscan
IPR012717 all species →	Family	T-complex protein 1, delta subunit	Interproscan
IPR027409 all species →	Homologous_superfamily	GroEL-like apical domain superfamily	Interproscan
IPR027413 all species →	Homologous_superfamily	GroEL-like equatorial domain superfamily	Interproscan
IPR027410 all species →	Homologous_superfamily	TCP-1-like chaperonin intermediate domain superfamily	Interproscan
IPR006636 all species →	Domain	Heat shock chaperonin-binding	Interproscan
IPR053374 all species →	Family	TCP-1 chaperonin-containing T-complex	Interproscan
IPR041243 all species →	Domain	STI1/HOP, DP domain	Interproscan
IPR002423 all species →	Family	Chaperonin Cpn60/GroEL/TCP-1 family	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11353 all species →	CHAPERONIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006457 all species →	Biological Process	protein folding	Interproscan
GO:0016887 all species →	Molecular Function	ATP hydrolysis activity	Interproscan
GO:0051082 all species →	Molecular Function	unfolded protein binding	Interproscan
GO:0140662 all species →	Molecular Function	ATP-dependent protein folding chaperone	Interproscan
GO:0005832 all species →	Cellular Component	chaperonin-containing T-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

No KEGG orthology assignment for BRAKERXEIP00000046209.1.

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 Muricea muricata 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 Muricea muricata, 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 →