Gene detail

Detailed information of OS493_014960-T1 in Lophelia pertusa

Genomic Location: scaffold_43:1069999...1071979
NR annotation: KAJ7392023.1, chromatin-modulating protein mrc1 [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
P22897	Macrophage mannose receptor 1 OS=Homo sapiens OX=9606 GN=MRC1 PE=1 SV=1
Q61830	Macrophage mannose receptor 1 OS=Mus musculus OX=10090 GN=Mrc1 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
IPR001304 all species →	Domain	C-type lectin-like	Interproscan
IPR051004 all species →	Family	Dendritic cell-specific ICAM-grabbing non-integrin domain-containing protein	Interproscan
IPR016186 all species →	Homologous_superfamily	C-type lectin-like/link domain superfamily	Interproscan
IPR016187 all species →	Homologous_superfamily	C-type lectin fold	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_014960-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_014960-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

79TPM > 0

7Conditions

204.4Max TPM

18.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	14	8.61	38.87
polyp at pH7 6	18	9	5.99	40.51
coral polyp · control treatment	16	14	30.48	204.43
coral polyp · oil and dispersant treatment	16	12	32.48	164.94
coral polyp · oil treatment	16	11	28.58	134.82
coral polyp · dispersant treatment	16	14	17.51	65.58
Polyp	10	5	5.23	22.32

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.87
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.93
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.75
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.65
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.85
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.66
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.31
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.54
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.15
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.96
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.96
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.25
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.17
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.90
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359497	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
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.51
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.60
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.21
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.35
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.89
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.14
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.17
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.12
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.77
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
SRR11359504	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
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
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	204.43
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.10
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.65
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.70
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.49
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.00
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.44
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.02
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.59
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.63
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.31
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.84
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.38
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.15
SRR16705973	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
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	164.94
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	134.25
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	71.61
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.48
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.46
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.70
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.00
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.98
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.69
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.92
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.19
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.46
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705982	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
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	134.82
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	120.44
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	81.42
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.29
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.81
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.54
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.20
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.84
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.26
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.84
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.81
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
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
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.58
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.38
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.98
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.76
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.75
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.59
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.74
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.30
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.67
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.44
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.23
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.96
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.43
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.40
SRR16705953	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
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	22.32
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	12.39
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.10
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	6.91
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.57
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
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.