Gene detail

Detailed information of OS493_001288-T1 in Lophelia pertusa

Genomic Location: scaffold_2:7771024...7785440
NR annotation: KAJ7387936.1, hypothetical protein OS493_001288 [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)	OG0007137 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF19028 all species →	TSP1_spondin	Spondin-like TSP1 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036383 all species →	Homologous_superfamily	Thrombospondin type-1 (TSP1) repeat superfamily	Interproscan
IPR039942 all species →	Family	Somatomedin-B and thrombospondin type-1 domain-containing protein	Interproscan
IPR000884 all species →	Repeat	Thrombospondin type-1 (TSP1) repeat	Interproscan
IPR044004 all species →	Domain	Spondin-like TSP1 domain	Interproscan
IPR001212 all species →	Domain	Somatomedin B domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR20920 all species →	RPE-SPONDIN	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_001288-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_001288-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_001288-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

73.6Max TPM

20.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	12.47	21.73
polyp at pH7 6	18	18	16.12	28.80
coral polyp · control treatment	16	16	26.22	49.73
coral polyp · oil and dispersant treatment	16	16	27.95	56.93
coral polyp · oil treatment	16	16	24.76	73.57
coral polyp · dispersant treatment	16	16	27.82	66.94
Polyp	10	9	4.59	9.73

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.73
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.32
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.12
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.92
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.35
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.70
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.67
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.77
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.76
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.59
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.86
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.43
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.09
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.26
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.15
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.51
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.26
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.94
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.80
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.19
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.94
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.26
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.89
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.88
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.86
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.48
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.40
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.64
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.22
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.78
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.60
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.34
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.67
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.41
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.57
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.16
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.73
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.36
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.05
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.79
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.61
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.98
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.18
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.85
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.06
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.10
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.57
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.19
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.49
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.38
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.05
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.14
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.93
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.12
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.82
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.11
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.66
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.93
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.66
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.87
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.16
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.17
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.19
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.44
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.40
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.02
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.39
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.33
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	73.57
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.49
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.30
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.66
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.03
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.53
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.51
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.78
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.04
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.99
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.25
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.24
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.33
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.59
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.47
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.45
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	66.94
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.17
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.75
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.03
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.27
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.81
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.74
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.91
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.32
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.13
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.14
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.37
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.43
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.48
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.60
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.98
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	9.73
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.71
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.57
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.11
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.87
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.38
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.75
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.64
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.11
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.