Gene detail

Detailed information of OS493_027222-T1 in Lophelia pertusa

Genomic Location: scaffold_146:724542...735776
NR annotation: KAJ7383559.1, hypothetical protein OS493_027222 [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)	OG0003865 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_027222-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR039575 all species →	Family	Prolyl 3-hydroxylase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14049 all species →	LEPRECAN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0032963 all species →	Biological Process	collagen metabolic process	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_027222-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_027222-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

25.4Max TPM

11.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	15.50	25.44
polyp at pH7 6	18	18	14.64	22.54
coral polyp · control treatment	16	16	12.42	21.90
coral polyp · oil and dispersant treatment	16	16	8.46	21.33
coral polyp · oil treatment	16	16	11.59	23.81
coral polyp · dispersant treatment	16	16	10.66	18.38
Polyp	10	9	4.09	8.05

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	-	25.44
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.80
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.17
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.16
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.51
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.35
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.32
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.75
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.80
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.65
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.51
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.24
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.99
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.90
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.88
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.35
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.73
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.42
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.54
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.63
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.17
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.66
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.12
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.20
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.18
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.70
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.00
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.70
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.34
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.73
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.31
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.31
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.84
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.80
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.47
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.86
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.90
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.08
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.78
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.44
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.22
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.89
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.78
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.72
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.70
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.36
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.02
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.84
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.03
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.66
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.15
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.23
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.33
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.66
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.60
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.89
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.40
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.76
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.62
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.62
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.47
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.15
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.09
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.70
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.98
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.51
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.45
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.09
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.81
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.41
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.53
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.31
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.31
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.59
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.88
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.87
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.78
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.95
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.57
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.05
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.67
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.43
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.93
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.35
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.38
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.28
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.15
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.29
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.22
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.58
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.90
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.32
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.96
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.39
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.96
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.86
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.97
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.49
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.23
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.52
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.05
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.42
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.05
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.99
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.93
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.95
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.94
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.47
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.12
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.