Gene detail

Detailed information of OS493_018990-T1 in Lophelia pertusa

Genomic Location: scaffold_64:977517...981348
NR annotation: KAJ7372483.1, hypothetical protein OS493_018990 [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)

UniProt accession	Description
P79391	Oxidized low-density lipoprotein receptor 1 OS=Bos taurus OX=9913 GN=OLR1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0011393 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00008 all species →	EGF	EGF-like domain	Domain	Interproscan
PF00024 all species →	PAN_1	PAN domain	Domain	Interproscan
PF00059 all species →	Lectin_C	Lectin C-type domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000742 all species →	Domain	EGF-like domain	Interproscan
IPR001304 all species →	Domain	C-type lectin-like	Interproscan
IPR003609 all species →	Domain	PAN/Apple domain	Interproscan
IPR050828 all species →	Family	C-type lectin and matrix domain-containing protein	Interproscan
IPR016187 all species →	Homologous_superfamily	C-type lectin fold	Interproscan
IPR016186 all species →	Homologous_superfamily	C-type lectin-like/link domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45710 all species →	C-TYPE LECTIN DOMAIN-CONTAINING PROTEIN 180	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_018990-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_018990-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_018990-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

68TPM > 0

7Conditions

6.1Max TPM

0.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	10	0.61	1.96
polyp at pH7 6	18	5	0.25	1.74
coral polyp · control treatment	16	14	1.13	2.63
coral polyp · oil and dispersant treatment	16	10	0.48	1.42
coral polyp · oil treatment	16	13	0.72	1.52
coral polyp · dispersant treatment	16	9	0.42	1.26
Polyp	10	7	1.33	6.12

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	-	1.96
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.77
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.39
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.32
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.01
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.93
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.89
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.76
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.54
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.50
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	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
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359511	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
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.74
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.06
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.68
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.61
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.38
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
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
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359515	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
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
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.63
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.32
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.03
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.82
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.67
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.28
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.24
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.08
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.95
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.90
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.86
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.77
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.36
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.15
SRR16705975	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
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.42
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.36
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.30
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.86
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.82
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.65
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.51
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.46
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.25
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.09
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705948	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
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.52
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.52
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.43
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.32
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.22
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.22
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.15
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.64
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.49
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.48
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.26
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.14
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.11
SRR16705950	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
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.26
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.22
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.11
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.71
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.71
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.56
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.42
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.37
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.34
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705956	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
SRR16705967	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
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.12
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.66
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.40
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.94
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.76
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.71
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.67
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.