Gene detail

Detailed information of OS493_006584-T1 in Lophelia pertusa

Genomic Location: scaffold_13:4414212...4422682
NR annotation: KAJ7393599.1, hypothetical protein OS493_006584 [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
Q91713	Chordin OS=Xenopus laevis OX=8355 GN=chrd PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008553 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00093 all species →	VWC	von Willebrand factor type C domain	Domain	Interproscan
PF07452 all species →	CHRD	CHRD domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001007 all species →	Domain	VWFC domain	Interproscan
IPR010895 all species →	Domain	CHRD	Interproscan
IPR052278 all species →	Family	Chordin-like dorsalizing regulators	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46526 all species →	CHORDIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005615 all species →	Cellular Component	extracellular space	Interproscan
GO:0009953 all species →	Biological Process	dorsal/ventral pattern formation	Interproscan
GO:0030514 all species →	Biological Process	negative regulation of BMP signaling pathway	Interproscan
GO:0036122 all species →	Molecular Function	BMP binding	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_006584-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_006584-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

55.6Max TPM

11.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.25	23.00
polyp at pH7 6	18	18	9.72	19.97
coral polyp · control treatment	16	16	11.74	25.27
coral polyp · oil and dispersant treatment	16	16	13.27	41.14
coral polyp · oil treatment	16	16	20.42	55.60
coral polyp · dispersant treatment	16	16	9.43	20.54
Polyp	10	8	5.60	15.95

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.00
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.30
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.20
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.19
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.83
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.02
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.75
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.76
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.64
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.35
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.76
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.25
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.06
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.54
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.06
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.31
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.09
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.38
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.97
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.74
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.01
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.27
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.23
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.35
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.22
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.61
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.02
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.93
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.69
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.01
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.90
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.73
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.82
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.19
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.98
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.26
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.27
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.01
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.06
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.16
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.86
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.29
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.73
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.23
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.77
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.72
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.71
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.62
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.94
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.88
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.79
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.73
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.14
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.63
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.54
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.99
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.23
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.06
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.02
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.74
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.08
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.02
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.05
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.52
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.29
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.92
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.41
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.65
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.60
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.31
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.62
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.96
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.23
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.79
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.26
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.28
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.53
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.14
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.76
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.75
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.06
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.69
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.87
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.87
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.54
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.90
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.67
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.87
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.74
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.19
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.03
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.11
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.27
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.22
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.81
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.61
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.05
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.24
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.57
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.99
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	15.95
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	14.82
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	12.50
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.36
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.69
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.47
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.65
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.57
SRR7746667	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.