Gene detail

Detailed information of OS493_012719-T1 in Lophelia pertusa

Genomic Location: scaffold_33:2371165...2379392
NR annotation: KAJ7379957.1, hypothetical protein OS493_012719 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003135 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14656 all species →	RAB3GAP2_C	Rab3 GTPase-activating protein regulatory subunit C-terminus	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029257 all species →	Domain	Rab3GAP regulatory subunit, C-terminal	Interproscan

PANTHER

No PANTHER signature was recorded for OS493_012719-T1 in Lophelia pertusa.

Gene Ontology

No Gene Ontology signature was recorded for OS493_012719-T1 in Lophelia pertusa.

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_012719-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_012719-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

105TPM > 0

7Conditions

65.2Max TPM

12.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	4.39	7.12
polyp at pH7 6	18	14	4.76	12.36
coral polyp · control treatment	16	16	21.88	62.95
coral polyp · oil and dispersant treatment	16	16	15.42	35.05
coral polyp · oil treatment	16	16	17.75	41.75
coral polyp · dispersant treatment	16	16	14.51	47.85
Polyp	10	10	12.57	65.21

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.12
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.88
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.70
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.59
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.35
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.14
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.10
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.66
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.60
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.47
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.30
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.90
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.89
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.79
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.67
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.70
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.22
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.36
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.59
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.30
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.57
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.38
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.93
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.32
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.12
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.60
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.29
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.06
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.57
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.33
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.21
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.95
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.14
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.65
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.46
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.33
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.79
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.99
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.77
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.54
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.77
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.39
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.21
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.14
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.38
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.05
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.52
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.05
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.26
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.54
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.25
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.96
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.27
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.81
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.92
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.44
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.20
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.34
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.74
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.73
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.65
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.30
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.25
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.75
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.49
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.71
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.15
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.09
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.98
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.40
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.26
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.95
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.77
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.57
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.08
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.58
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.47
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.93
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.80
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.85
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.49
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.49
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.13
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.02
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.08
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.45
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.06
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.96
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.88
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.00
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.65
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.65
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.62
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.53
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.24
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	65.21
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	22.05
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	8.88
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.94
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.94
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.40
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.83
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.78
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.61

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.