Gene detail

Detailed information of OS493_014887-T1 in Lophelia pertusa

Genomic Location: scaffold_42:2483374...2486496
NR annotation: KAJ7334563.1, Prefoldin subunit 6 [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q03958	Prefoldin subunit 6 OS=Mus musculus OX=10090 GN=Pfdn6 PE=1 SV=1
Q5TJE6	Prefoldin subunit 6 OS=Canis lupus familiaris OX=9615 GN=PFDN6 PE=3 SV=1
O15212	Prefoldin subunit 6 OS=Homo sapiens OX=9606 GN=PFDN6 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008550 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01920 all species →	Prefoldin_2	Prefoldin subunit	Coiled-coil	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002777 all species →	Family	Prefoldin beta-like	Interproscan
IPR009053 all species →	Homologous_superfamily	Prefoldin	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21431 all species →	PREFOLDIN SUBUNIT 6	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006457 all species →	Biological Process	protein folding	Interproscan
GO:0016272 all species →	Cellular Component	prefoldin complex	Interproscan
GO:0051082 all species →	Molecular Function	unfolded protein binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0051087 all species →	Molecular Function	protein-folding chaperone binding	Interproscan
GO:0051131 all species →	Biological Process	chaperone-mediated protein complex assembly	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
K04798	pfdB, PFDN6; prefoldin beta subunit	-	Chaperones and folding catalysts	ko03110	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_014887-T1 across 110 RNA-seq samples of Lophelia pertusa. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

110Samples

109TPM > 0

7Conditions

63.7Max TPM

22.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	28.61	45.65
polyp at pH7 6	18	18	31.86	60.52
coral polyp · control treatment	16	16	20.09	32.16
coral polyp · oil and dispersant treatment	16	16	15.70	29.73
coral polyp · oil treatment	16	16	18.26	36.29
coral polyp · dispersant treatment	16	16	13.31	24.76
Polyp	10	9	28.19	63.69

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.65
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.08
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.67
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.39
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.27
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.84
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.70
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.12
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.62
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.11
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.98
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.02
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.10
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.27
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.11
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.95
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.91
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.15
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.52
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.06
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.58
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.48
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.85
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.64
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.14
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.45
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.74
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.74
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.60
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.06
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.40
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.80
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.65
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.13
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.62
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.10
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.16
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.36
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.71
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.26
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.12
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.03
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.70
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.15
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.94
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.70
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.39
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.41
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.68
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.20
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.55
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.15
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.73
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.94
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.67
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.11
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.01
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.99
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.76
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.73
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.10
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.94
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.10
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.68
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.56
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.57
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.10
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.27
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.29
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.05
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.30
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.25
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.07
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.05
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.46
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.14
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.82
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.48
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.31
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.19
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.23
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.88
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.86
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.85
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.76
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.97
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.19
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.99
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.77
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.51
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.64
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.26
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.89
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.53
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.46
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.37
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.16
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.25
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.48
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.81
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	63.69
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	35.13
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	31.91
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	28.18
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	26.34
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	25.64
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	24.59
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	24.31
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	22.08
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.