Gene detail

Detailed information of OS493_006089-T1 in Lophelia pertusa

Genomic Location: scaffold_12:4551310...4553528
NR annotation: KAJ7339680.1, hypothetical protein OS493_006089 [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)	OG0009724 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF15323 all species →	Ashwin	Developmental protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR024887 all species →	Family	Ashwin	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR28359 all species →	ASHWIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0048598 all species →	Biological Process	embryonic morphogenesis	Interproscan
GO:0072669 all species →	Cellular Component	tRNA-splicing ligase 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K15432	ASW; ashwin	-	Transfer RNA biogenesis	ko03016	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_006089-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

108TPM > 0

7Conditions

12.6Max TPM

4.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.11	9.67
polyp at pH7 6	18	16	4.24	10.88
coral polyp · control treatment	16	16	5.61	9.82
coral polyp · oil and dispersant treatment	16	16	4.38	12.57
coral polyp · oil treatment	16	16	4.42	9.63
coral polyp · dispersant treatment	16	16	3.51	5.98
Polyp	10	10	5.44	12.58

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.67
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.35
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.80
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.52
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.40
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.28
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.25
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.13
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.10
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.78
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.75
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.66
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.52
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.38
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.36
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.74
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.20
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.17
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.88
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.49
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.31
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.88
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.21
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.64
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.43
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.37
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.33
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.30
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.24
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.08
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.74
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.71
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.66
SRR11359500	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
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.82
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.62
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.40
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.20
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.03
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.81
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.48
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.87
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.64
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.29
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.90
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.03
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.98
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.51
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.95
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.23
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.57
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.69
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.90
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.26
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.76
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.27
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.15
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.85
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.63
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.53
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.94
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.79
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.74
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.62
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.49
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.91
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.63
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.27
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.44
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.18
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.11
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.92
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.88
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.18
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.15
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.72
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.66
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.98
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.81
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.21
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.17
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.45
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.98
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.80
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.14
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.98
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.53
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.28
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.10
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.67
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.49
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.46
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.58
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.54
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.31
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.17
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.80
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.33
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	12.58
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.84
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.44
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.47
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.95
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.09
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.73
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.43
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.16
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.74

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.