Gene detail

Detailed information of OS493_013023-T1 in Lophelia pertusa

Genomic Location: scaffold_34:2531575...2536449
NR annotation: KAJ7373429.1, hypothetical protein OS493_013023 [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)	OG0006776 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12799 all species →	LRR_4	Leucine Rich repeats (2 copies)	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029071 all species →	Homologous_superfamily	Ubiquitin-like domain superfamily	Interproscan
IPR032675 all species →	Homologous_superfamily	Leucine-rich repeat domain superfamily	Interproscan
IPR025875 all species →	Repeat	Leucine rich repeat 4	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46545 all species →	LEUCINE-RICH REPEAT-CONTAINING PROTEIN 51	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_013023-T1. This gene does have a gene model — the search simply returned no hit.

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_013023-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_013023-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

105.1Max TPM

30.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	21.53	38.91
polyp at pH7 6	18	18	23.78	43.67
coral polyp · control treatment	16	16	33.93	66.91
coral polyp · oil and dispersant treatment	16	16	54.29	105.10
coral polyp · oil treatment	16	16	35.74	85.36
coral polyp · dispersant treatment	16	16	24.21	47.02
Polyp	10	10	14.52	36.18

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.91
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.71
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.72
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.98
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.00
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.88
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.53
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.40
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.57
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.14
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.75
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.95
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.17
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.66
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.63
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.85
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.72
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.67
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.44
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.57
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.15
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.95
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.60
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.68
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.58
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.29
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.21
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.36
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.04
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.16
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.75
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.78
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.01
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.42
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.37
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.91
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.17
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.91
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.12
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.05
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.38
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.08
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.57
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.53
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.19
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.66
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.72
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.13
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.55
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.27
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.60
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	105.10
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	92.91
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.62
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	77.22
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	76.93
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	67.60
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.93
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.95
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.10
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.21
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.91
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.49
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.46
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.88
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.67
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.67
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.36
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.53
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.64
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.12
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.02
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.13
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.78
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.00
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.75
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.86
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.96
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.55
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.46
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.53
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.76
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.42
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.02
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.96
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.42
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.46
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.16
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.69
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.61
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.08
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.28
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.23
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.53
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.49
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.25
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.11
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.08
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	36.18
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	28.89
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	24.13
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	17.99
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	14.97
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	7.95
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.54
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.60
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.26
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.64

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.