Gene detail

Detailed information of OS493_013251-T1 in Lophelia pertusa

Genomic Location: scaffold_35:1781646...1793490
NR annotation: KAJ7362159.1, hypothetical protein OS493_013251, partial [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)	OG0000073 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07645 all species →	EGF_CA	Calcium-binding EGF domain	Domain	Interproscan
PF07648 all species →	Kazal_2	Kazal-type serine protease inhibitor domain	Domain	Interproscan
PF09458 all species →	H_lectin	H-type lectin domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR018097 all species →	Conserved_site	EGF-like calcium-binding, conserved site	Interproscan
IPR049883 all species →	Domain	NOTCH1 EGF-like calcium-binding domain	Interproscan
IPR002350 all species →	Domain	Kazal domain	Interproscan
IPR001881 all species →	Domain	EGF-like calcium-binding domain	Interproscan
IPR037221 all species →	Homologous_superfamily	H-type lectin domain superfamily	Interproscan
IPR016187 all species →	Homologous_superfamily	C-type lectin fold	Interproscan
IPR036058 all species →	Homologous_superfamily	Kazal domain superfamily	Interproscan
IPR000742 all species →	Domain	EGF-like domain	Interproscan
IPR000152 all species →	PTM	EGF-type aspartate/asparagine hydroxylation site	Interproscan
IPR019019 all species →	Domain	H-type lectin domain	Interproscan

PANTHER

No PANTHER signature was detected for OS493_013251-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0007155 all species →	Biological Process	cell adhesion	Interproscan
GO:0030246 all species →	Molecular Function	carbohydrate 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_013251-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_013251-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

76TPM > 0

7Conditions

14.1Max TPM

2.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	14	2.57	7.58
polyp at pH7 6	18	13	4.37	14.09
coral polyp · control treatment	16	12	2.31	8.71
coral polyp · oil and dispersant treatment	16	11	1.59	8.17
coral polyp · oil treatment	16	10	1.75	7.38
coral polyp · dispersant treatment	16	10	1.79	6.08
Polyp	10	6	0.55	2.11

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	-	7.58
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.39
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.31
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.16
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.98
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.84
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.37
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.14
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.90
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.37
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.29
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.12
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.03
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.73
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.09
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.29
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.97
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.14
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.11
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.05
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.95
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.90
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.81
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.72
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.30
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.21
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.09
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	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
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.71
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.45
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.61
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.52
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.63
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.25
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.76
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.51
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.50
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.31
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.45
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.29
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.17
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.32
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.80
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.72
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.53
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.05
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.32
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.93
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.87
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.41
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.38
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.38
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.65
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.38
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.16
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.52
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.29
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.90
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.98
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.60
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.22
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.08
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.13
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.01
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.10
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.02
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.83
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.36
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.08
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.03
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.96
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.11
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.85
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.74
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.46
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.35
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
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.