Gene detail

Detailed information of OS493_000088-T1 in Lophelia pertusa

Genomic Location: scaffold_1:1027098...1033035
NR annotation: KAJ7394286.1, Prefoldin subunit 3 [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
P61759	Prefoldin subunit 3 OS=Mus musculus OX=10090 GN=Vbp1 PE=1 SV=2
P61758	Prefoldin subunit 3 OS=Homo sapiens OX=9606 GN=VBP1 PE=1 SV=4
Q5RCG9	Prefoldin subunit 3 OS=Pongo abelii OX=9601 GN=VBP1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007097 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_000088-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR016655 all species →	Family	Prefoldin subunit 3	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12409 all species →	PREFOLDIN SUBUNIT 3	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005844 all species →	Cellular Component	obsolete polysome	Interproscan
GO:0006457 all species →	Biological Process	protein folding	Interproscan
GO:0007017 all species →	Biological Process	microtubule-based process	Interproscan
GO:0007021 all species →	Biological Process	tubulin complex assembly	Interproscan
GO:0015631 all species →	Molecular Function	tubulin binding	Interproscan
GO:0016272 all species →	Cellular Component	prefoldin 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 OS493_000088-T1.

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_000088-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

110TPM > 0

7Conditions

168.0Max TPM

83.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	98.77	146.14
polyp at pH7 6	18	18	95.89	167.95
coral polyp · control treatment	16	16	83.57	113.62
coral polyp · oil and dispersant treatment	16	16	60.05	100.73
coral polyp · oil treatment	16	16	78.21	114.93
coral polyp · dispersant treatment	16	16	60.40	91.60
Polyp	10	10	115.65	164.78

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	146.14
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	142.30
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	140.80
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	135.81
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	120.62
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	114.78
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	98.27
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	97.96
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	92.58
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	89.13
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	80.28
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	79.92
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	77.67
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	77.24
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	74.31
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	72.35
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	71.10
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	66.54
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	167.95
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	165.22
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	108.41
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	106.04
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	102.42
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	100.48
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	99.75
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	95.00
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	93.02
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	92.25
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	90.08
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	88.63
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	84.97
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	72.83
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	72.71
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.54
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	63.92
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.71
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	113.62
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	113.47
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	113.32
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	100.88
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	98.86
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	97.50
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	96.26
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	84.15
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.03
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.87
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	72.04
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.52
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.38
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	63.68
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.10
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.47
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	100.73
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.60
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	79.98
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	67.76
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.46
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.97
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.57
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.38
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.01
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.93
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.86
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.10
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.30
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.02
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.37
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.77
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	114.93
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	110.21
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	107.40
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	89.29
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	84.54
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	84.52
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	84.13
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	78.37
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	74.11
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	68.75
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	66.46
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	63.40
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.90
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.62
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	56.70
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.02
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	91.60
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	89.47
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	84.62
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	72.31
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	72.17
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.98
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.62
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	58.31
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.04
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.03
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.36
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.22
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.21
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.84
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.55
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.04
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	164.78
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	163.49
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	158.58
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	138.60
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	137.09
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	97.37
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	92.84
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	82.92
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	62.92
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	57.88

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.