Gene detail

Detailed information of OS493_014500-T1 in Lophelia pertusa

Genomic Location: scaffold_41:1233303...1238285
NR annotation: KAJ7361857.1, hypothetical protein OS493_014500 [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
Q9QYC7	Vitamin K-dependent gamma-carboxylase OS=Mus musculus OX=10090 GN=Ggcx PE=1 SV=1
Q5RF50	Vitamin K-dependent gamma-carboxylase OS=Pongo abelii OX=9601 GN=GGCX PE=2 SV=1
P38435	Vitamin K-dependent gamma-carboxylase OS=Homo sapiens OX=9606 GN=GGCX PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003929 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05090 all species →	VKG_Carbox	Vitamin K-dependent gamma-carboxylase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007782 all species →	Family	Vitamin K-dependent gamma-carboxylase	Interproscan
IPR011020 all species →	Domain	HTTM	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12639 all species →	VITAMIN K-DEPENDENT GAMMA-CARBOXYLASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008488 all species →	Molecular Function	gamma-glutamyl carboxylase activity	Interproscan
GO:0017187 all species →	Biological Process	peptidyl-glutamic acid carboxylation	Interproscan
GO:0019842 all species →	Molecular Function	vitamin 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_014500-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_014500-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

32.8Max TPM

7.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.10	9.33
polyp at pH7 6	18	18	5.53	10.21
coral polyp · control treatment	16	16	11.78	32.83
coral polyp · oil and dispersant treatment	16	16	8.90	30.35
coral polyp · oil treatment	16	16	8.59	17.78
coral polyp · dispersant treatment	16	16	6.49	11.98
Polyp	10	9	4.45	12.47

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	-	9.33
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.13
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.47
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.13
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.13
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.98
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.94
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.93
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.75
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.64
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.61
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.04
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.99
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.99
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.80
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.08
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.88
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.21
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.53
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.29
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.27
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.20
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.09
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.22
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.91
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.83
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.37
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.13
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.86
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.84
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.47
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.54
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.93
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.94
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.86
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.83
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.54
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.63
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.96
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.42
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.12
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.19
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.38
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.40
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.22
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.35
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.05
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.57
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.55
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.55
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.64
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.35
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.81
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.54
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.53
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.96
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.02
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.41
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.24
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.97
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.85
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.35
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.83
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.08
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.35
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.15
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.93
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.78
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.31
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.02
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.68
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.84
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.52
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.51
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.43
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.78
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.46
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.44
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.25
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.99
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.90
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.24
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.25
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.98
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.59
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.95
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.51
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.44
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.33
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.05
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.66
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.57
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.49
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.32
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.05
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.44
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.26
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.61
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.59
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	12.47
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.61
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.47
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.27
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.56
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.50
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.41
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.46
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.78
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.