Gene detail

Detailed information of OS493_028309-T1 in Lophelia pertusa

Genomic Location: scaffold_162:182053...193021
NR annotation: KAJ7326053.1, mRNA-decapping enzyme 1B [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
Q3U564	mRNA-decapping enzyme 1B OS=Mus musculus OX=10090 GN=Dcp1b PE=1 SV=1
Q3SZL6	mRNA-decapping enzyme 1B OS=Bos taurus OX=9913 GN=DCP1B PE=2 SV=1
Q5R413	mRNA-decapping enzyme 1B OS=Pongo abelii OX=9601 GN=DCP1B PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006331 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16741 all species →	mRNA_decap_C	mRNA-decapping enzyme C-terminus	Domain	Interproscan
PF06058 all species →	DCP1	Dcp1-like decapping family	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR031953 all species →	Domain	mRNA-decapping enzyme, C-terminal	Interproscan
IPR010334 all species →	Family	mRNA-decapping enzyme subunit 1	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16290 all species →	TRANSCRIPTION FACTOR SMIF DECAPPING ENZYME DCP1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000290 all species →	Biological Process	deadenylation-dependent decapping of nuclear-transcribed mRNA	Interproscan
GO:0000932 all species →	Cellular Component	P-body	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0008047 all species →	Molecular Function	enzyme activator activity	Interproscan
GO:0031087 all species →	Biological Process	deadenylation-independent decapping of nuclear-transcribed mRNA	Interproscan
GO:0043085 all species →	Biological Process	positive regulation of catalytic activity	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K12611	DCP1B; mRNA-decapping enzyme 1B	EC:3.-.-.-	Messenger RNA biogenesis	ko03019	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_028309-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

106TPM > 0

7Conditions

10.6Max TPM

3.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	2.00	3.34
polyp at pH7 6	18	16	2.01	3.39
coral polyp · control treatment	16	16	4.49	10.63
coral polyp · oil and dispersant treatment	16	16	4.21	10.65
coral polyp · oil treatment	16	16	3.52	6.78
coral polyp · dispersant treatment	16	16	2.89	6.27
Polyp	10	9	1.47	2.59

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.34
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.96
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.91
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.66
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.40
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.40
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.33
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.11
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.09
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.01
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.96
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.65
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.62
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.56
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.46
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.27
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.19
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.39
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.23
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.21
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.02
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.85
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.57
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.54
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.42
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.32
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.23
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.09
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.08
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.89
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.16
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.66
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.55
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.63
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.30
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.29
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.66
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.48
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.71
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.04
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.40
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.94
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.84
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.34
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.71
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.52
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.42
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.86
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.70
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.65
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.52
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.65
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.40
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.23
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.13
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.97
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.78
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.61
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.52
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.20
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.17
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.78
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.76
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.67
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.39
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.78
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.82
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.43
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.92
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.88
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.53
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.16
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.01
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.56
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.08
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.95
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.89
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.72
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.39
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.67
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.49
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.27
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.43
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.67
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.98
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.22
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.92
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.87
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.86
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.68
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.59
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.14
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.78
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.77
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.63
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.24
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.22
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.59
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.31
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.67
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.55
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.45
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.26
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.18
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.69
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.