Gene detail

Detailed information of OS493_022329-T1 in Lophelia pertusa

Genomic Location: scaffold_91:432348...444545
NR annotation: KAJ7390771.1, hypothetical protein OS493_022329 [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)	OG0030149 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12947 all species →	EGF_3	EGF domain	Domain	Interproscan
PF12946 all species →	EGF_MSP1_1	MSP1 EGF domain 1	Domain	Interproscan
PF12661 all species →	hEGF	Human growth factor-like EGF	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000152 all species →	PTM	EGF-type aspartate/asparagine hydroxylation site	Interproscan
IPR018097 all species →	Conserved_site	EGF-like calcium-binding, conserved site	Interproscan
IPR000742 all species →	Domain	EGF-like domain	Interproscan
IPR024731 all species →	Domain	EGF domain	Interproscan
IPR009030 all species →	Homologous_superfamily	Growth factor receptor cysteine-rich domain superfamily	Interproscan
IPR024730 all species →	Domain	Merozoite surface protein, EGF domain 1	Interproscan
IPR013032 all species →	Conserved_site	EGF-like, conserved site	Interproscan
IPR001881 all species →	Domain	EGF-like calcium-binding domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24039 all species →	FIBRILLIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion binding	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_022329-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_022329-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

105TPM > 0

7Conditions

10.9Max TPM

3.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	2.83	7.02
polyp at pH7 6	18	16	3.35	6.66
coral polyp · control treatment	16	16	3.58	8.01
coral polyp · oil and dispersant treatment	16	16	3.27	10.87
coral polyp · oil treatment	16	16	3.58	8.01
coral polyp · dispersant treatment	16	16	2.61	7.34
Polyp	10	7	0.70	2.28

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	-	7.02
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.50
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.35
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.89
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.01
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.98
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.66
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.26
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.19
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.06
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.03
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.97
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.78
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.74
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.69
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.53
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.18
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.12
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.66
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.46
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.56
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.01
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.54
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.39
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.10
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.83
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.41
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.29
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.74
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.73
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.44
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.20
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.82
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.13
SRR11359524	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	8.01
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.84
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.74
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.69
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.73
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.71
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.22
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.81
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.42
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.42
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.91
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.84
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.81
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.67
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.39
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.05
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.87
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.17
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.77
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.40
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.25
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.36
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.02
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.33
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.09
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.63
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.50
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.14
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.94
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.80
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.52
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.49
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.01
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.98
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.67
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.01
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.51
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.29
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.64
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.62
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.55
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.29
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.13
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.85
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.40
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.35
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.00
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.99
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.34
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.09
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.21
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.46
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.02
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.87
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.69
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.88
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.54
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.41
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.19
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.71
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.44
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.35
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.31
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.19
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.28
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.07
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.67
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.60
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.59
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.51
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.31
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
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.