Gene detail

Detailed information of OS493_008732-T1 in Lophelia pertusa

Genomic Location: scaffold_20:3596779...3607579
NR annotation: KAJ7386585.1, hypothetical protein OS493_008732 [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)	OG0008401 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_008732-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR036028 all species →	Homologous_superfamily	SH3-like domain superfamily	Interproscan
IPR043443 all species →	Family	FYN-binding protein 1/2-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16830 all species →	SH2 CONTAINING ADAPTOR PRAM-1 RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007229 all species →	Biological Process	integrin-mediated signaling pathway	Interproscan
GO:0050852 all species →	Biological Process	T cell receptor signaling pathway	Interproscan
GO:0072659 all species →	Biological Process	protein localization to plasma membrane	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_008732-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_008732-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

88.6Max TPM

40.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	31.00	35.91
polyp at pH7 6	18	18	33.76	55.53
coral polyp · control treatment	16	16	52.73	80.65
coral polyp · oil and dispersant treatment	16	16	47.89	88.64
coral polyp · oil treatment	16	16	41.66	79.52
coral polyp · dispersant treatment	16	16	40.93	67.73
Polyp	10	10	32.14	41.99

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.91
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.06
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.44
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.43
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.38
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.25
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.88
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.88
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.31
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.22
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.96
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.31
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.33
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.17
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.10
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.87
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.54
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.90
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.53
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.68
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.22
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.63
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.59
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.11
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.10
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.54
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.32
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.58
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.14
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.14
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.59
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.10
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.65
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.07
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.39
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.35
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	80.65
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	75.05
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	73.62
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.21
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.52
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	63.90
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.57
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.10
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.41
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.60
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.40
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.73
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.10
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.54
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.83
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.52
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.64
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.88
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	68.41
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.36
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.07
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.22
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.50
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.06
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.67
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.44
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.76
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.38
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.37
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.15
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.84
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.56
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	79.52
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.54
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.60
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.01
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.29
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.73
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.23
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.84
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.39
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.26
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.17
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.27
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.97
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.64
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.08
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	67.73
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.00
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.32
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.11
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.60
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.61
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.50
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.37
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.15
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.08
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.57
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.94
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.51
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.26
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.94
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.18
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	41.99
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	37.33
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	36.14
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	34.53
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	32.50
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	31.46
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	30.30
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	29.96
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	27.44
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	19.80

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.