Gene detail

Detailed information of OS493_016544-T1 in Lophelia pertusa

Genomic Location: scaffold_50:2398132...2399941
NR annotation: KAJ7385460.1, hypothetical protein OS493_016544 [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
Q2VLG6	Scavenger receptor cysteine-rich type 1 protein M130 OS=Canis lupus familiaris OX=9615 GN=CD163 PE=2 SV=1
Q86VB7	Scavenger receptor cysteine-rich type 1 protein M130 OS=Homo sapiens OX=9606 GN=CD163 PE=1 SV=2
Q2VLG4	Scavenger receptor cysteine-rich type 1 protein M130 OS=Chlorocebus aethiops OX=9534 GN=CD163 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002630 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00530 all species →	SRCR	Scavenger receptor cysteine-rich domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001190 all species →	Domain	SRCR domain	Interproscan
IPR009030 all species →	Homologous_superfamily	Growth factor receptor cysteine-rich domain superfamily	Interproscan
IPR036772 all species →	Homologous_superfamily	SRCR-like domain superfamily	Interproscan
IPR050912 all species →	Family	Lysyl oxidase-like protein	Interproscan
IPR017448 all species →	Domain	SRCR-like domain	Interproscan
IPR006212 all species →	Repeat	Furin-like repeat	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45817 all species →	LYSYL OXIDASE-LIKE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0004720 all species →	Molecular Function	protein-lysine 6-oxidase activity	Interproscan
GO:0005615 all species →	Cellular Component	extracellular space	Interproscan
GO:0018057 all species →	Biological Process	peptidyl-lysine oxidation	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_016544-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_016544-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

109TPM > 0

7Conditions

36.7Max TPM

12.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.80	17.80
polyp at pH7 6	18	18	7.49	11.53
coral polyp · control treatment	16	16	14.96	22.28
coral polyp · oil and dispersant treatment	16	16	20.46	36.67
coral polyp · oil treatment	16	16	12.64	28.18
coral polyp · dispersant treatment	16	16	18.86	32.10
Polyp	10	9	1.90	4.37

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.80
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.80
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.14
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.05
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.29
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.71
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.96
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.90
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.83
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.73
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.63
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.83
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.52
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.69
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.95
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.78
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.71
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.53
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.29
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.17
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.97
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.03
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.28
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.21
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.13
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.06
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.92
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.69
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.65
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.79
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.21
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.91
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.64
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.05
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.27
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.28
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.68
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.55
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.02
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.98
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.58
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.55
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.94
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.21
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.50
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.75
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.56
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.43
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.16
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.15
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.07
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.67
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.00
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.73
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.89
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.48
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.64
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.42
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.16
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.63
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.22
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.15
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.03
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.69
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.53
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.34
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.73
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.18
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.43
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.25
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.62
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.99
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.90
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.73
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.48
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.14
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.63
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.71
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.62
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.50
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.26
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.39
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.35
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.10
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.55
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.82
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.84
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.40
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.03
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.08
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.76
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.04
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.71
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.20
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.08
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.70
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.60
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.68
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.12
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.37
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.14
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.65
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.05
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.63
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.44
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.40
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.08
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.29
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.