Gene detail

Detailed information of OS493_014964-T1 in Lophelia pertusa

Genomic Location: scaffold_43:1159024...1171992
NR annotation: KAJ7392026.1, C-type lectin (CTL) or carbohydrate-recognition domain (CRD) [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
Q6A051	Attractin-like protein 1 OS=Mus musculus OX=10090 GN=Atrnl1 PE=1 SV=2
Q5VV63	Attractin-like protein 1 OS=Homo sapiens OX=9606 GN=ATRNL1 PE=1 SV=2

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
IPR051004 all species →	Family	Dendritic cell-specific ICAM-grabbing non-integrin domain-containing protein	Interproscan
IPR001304 all species →	Domain	C-type lectin-like	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
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_014964-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_014964-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

108TPM > 0

7Conditions

721.5Max TPM

105.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	97.54	234.46
polyp at pH7 6	18	18	115.00	418.95
coral polyp · control treatment	16	16	141.22	389.59
coral polyp · oil and dispersant treatment	16	16	126.15	721.55
coral polyp · oil treatment	16	15	124.83	605.02
coral polyp · dispersant treatment	16	16	67.22	196.41
Polyp	10	9	43.55	203.17

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	234.46
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	223.76
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	188.99
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	174.90
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	162.30
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	156.99
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	106.18
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	101.77
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	101.43
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	100.42
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	69.65
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.16
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.19
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.92
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.31
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.76
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.86
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.73
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	418.95
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	414.46
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	261.30
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	256.69
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	174.48
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	159.41
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	102.51
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	99.25
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	68.73
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.18
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.34
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.65
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.61
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.10
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.54
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.70
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.67
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.40
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	389.59
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	352.09
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	343.35
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	300.78
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	247.63
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	138.12
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	116.32
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	103.24
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	76.45
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	73.77
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.79
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.10
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.29
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.76
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.29
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	721.55
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	346.07
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	259.92
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	193.26
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	147.31
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	90.76
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.38
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.58
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.94
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.23
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.67
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.15
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.18
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.69
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.52
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.13
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	605.02
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	447.58
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	271.57
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	237.10
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	138.86
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	73.70
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	60.45
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	56.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.24
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.46
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.28
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.38
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.38
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.41
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.81
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	196.41
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	172.04
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	159.85
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	82.82
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	66.29
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.44
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.01
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.67
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.47
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.28
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.88
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.46
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.83
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.33
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.70
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	203.17
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	113.90
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	67.48
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	42.08
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.11
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.47
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.71
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.41
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.19
SRR23025713	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.