Gene detail

Detailed information of OS493_010548-T1 in Lophelia pertusa

Genomic Location: scaffold_25:3190551...3194879
NR annotation: KAJ7392887.1, C-type lectin domain 4 member E [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
Q8C351	Layilin OS=Mus musculus OX=10090 GN=Layn PE=1 SV=4

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000566 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00059 all species →	Lectin_C	Lectin C-type domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR016187 all species →	Homologous_superfamily	C-type lectin fold	Interproscan
IPR051004 all species →	Family	Dendritic cell-specific ICAM-grabbing non-integrin domain-containing protein	Interproscan
IPR001304 all species →	Domain	C-type lectin-like	Interproscan
IPR016186 all species →	Homologous_superfamily	C-type lectin-like/link domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22802 all species →	C-TYPE LECTIN SUPERFAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0009897 all species →	Cellular Component	external side of plasma membrane	Interproscan
GO:0030246 all species →	Molecular Function	carbohydrate binding	Interproscan
GO:0044419 all species →	Biological Process	biological process involved in interspecies interaction between organisms	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_010548-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_010548-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

98TPM > 0

7Conditions

10.7Max TPM

2.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	3.75	9.71
polyp at pH7 6	18	11	2.98	10.66
coral polyp · control treatment	16	15	2.60	6.81
coral polyp · oil and dispersant treatment	16	15	1.88	6.25
coral polyp · oil treatment	16	16	1.49	3.48
coral polyp · dispersant treatment	16	16	2.26	7.25
Polyp	10	9	2.69	4.98

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.71
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.08
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.06
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.43
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.99
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.84
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.60
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.20
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.06
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.79
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.60
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.48
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.40
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.25
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.25
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.78
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
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.66
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.89
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.44
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.48
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.76
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.42
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.86
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.88
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.81
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.43
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.07
SRR11359513	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
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.81
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.37
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.35
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.47
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.18
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.85
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.70
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.62
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.40
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.10
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.45
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.86
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.67
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.59
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.13
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.25
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.62
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.08
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.70
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.25
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.86
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.59
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.31
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.27
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.16
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.16
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.16
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.06
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.98
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.63
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.48
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.38
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.11
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.02
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.94
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.87
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.63
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.47
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.20
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.08
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.07
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.02
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.83
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.79
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.77
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.24
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.25
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.08
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.04
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.80
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.41
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.32
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.30
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.79
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.51
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.33
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.14
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.02
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.73
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.60
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.52
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.31
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.98
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.78
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.61
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.50
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.52
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.28
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.87
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.24
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.17
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.