Gene detail

Detailed information of OS493_004542-T1 in Lophelia pertusa

Genomic Location: scaffold_9:1372699...1375252
NR annotation: KAJ7380952.1, hypothetical protein OS493_004542 [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
Q8MJJ7	m7GpppX diphosphatase OS=Bos taurus OX=9913 GN=DCPS PE=2 SV=1
Q8MIZ3	m7GpppX diphosphatase OS=Sus scrofa OX=9823 GN=DCPS PE=2 SV=1
Q8K4F7	m7GpppX diphosphatase OS=Rattus norvegicus OX=10116 GN=Dcps PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006465 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF11969 all species →	DcpS_C	Scavenger mRNA decapping enzyme C-term binding	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036265 all species →	Homologous_superfamily	HIT-like superfamily	Interproscan
IPR008594 all species →	Family	Scavenger mRNA decapping enzyme DcpS/DCS2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12978 all species →	HISTIDINE TRIAD HIT PROTEIN MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000290 all species →	Biological Process	deadenylation-dependent decapping of nuclear-transcribed mRNA	Interproscan
GO:0000340 all species →	Molecular Function	RNA 7-methylguanosine cap binding	Interproscan
GO:0000932 all species →	Cellular Component	P-body	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0016787 all species →	Molecular Function	hydrolase activity	Interproscan
GO:0050072 all species →	Molecular Function	obsolete m7G(5')pppN diphosphatase 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

No KEGG orthology assignment for OS493_004542-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_004542-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

84.6Max TPM

14.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	11.70	17.42
polyp at pH7 6	18	17	11.67	18.95
coral polyp · control treatment	16	16	16.35	32.08
coral polyp · oil and dispersant treatment	16	16	15.91	84.62
coral polyp · oil treatment	16	16	14.21	29.49
coral polyp · dispersant treatment	16	16	9.24	16.01
Polyp	10	10	26.99	44.68

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.42
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.07
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.20
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.04
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.82
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.79
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.51
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.46
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.20
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.19
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.39
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.02
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.31
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.28
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.14
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.03
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.04
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.67
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.95
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.49
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.25
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.76
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.41
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.49
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.08
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.97
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.65
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.07
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.92
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.88
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.64
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.90
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.64
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.29
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.75
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.08
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.24
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.70
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.01
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.62
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.02
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.67
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.50
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.44
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.85
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.83
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.96
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.19
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.99
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.71
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.83
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.62
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.90
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.37
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.29
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.22
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.07
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.25
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.17
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.96
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.28
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.19
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.85
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.52
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.30
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.99
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.59
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.49
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.75
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.58
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.28
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.24
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.92
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.54
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.85
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.74
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.02
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.66
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.61
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.36
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.75
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.66
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.01
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.77
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.39
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.19
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.16
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.09
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.98
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.39
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.36
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.39
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.29
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.23
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.87
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.56
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.46
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.70
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	44.68
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	38.97
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	37.65
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	31.84
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	26.12
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	24.44
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	19.31
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	18.15
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	15.46
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	13.26

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.