Gene detail

Detailed information of OS493_014308-T1 in Lophelia pertusa

Genomic Location: scaffold_40:1983791...1988316
NR annotation: KAJ7373160.1, 5'-3' exoribonuclease 2 [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
Q5ZIP4	5'-3' exoribonuclease 2 OS=Gallus gallus OX=9031 GN=XRN2 PE=2 SV=1
Q9H0D6	5'-3' exoribonuclease 2 OS=Homo sapiens OX=9606 GN=XRN2 PE=1 SV=1
Q5R4L5	5'-3' exoribonuclease 2 OS=Pongo abelii OX=9601 GN=XRN2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001148 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03159 all species →	XRN_N	XRN 5'-3' exonuclease N-terminus	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027073 all species →	Family	5'-3' exoribonuclease	Interproscan
IPR004859 all species →	Domain	Xrn1, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12341 all species →	5'->3' EXORIBONUCLEASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0004527 all species →	Molecular Function	exonuclease 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_014308-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_014308-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

30.7Max TPM

12.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.11	13.50
polyp at pH7 6	18	16	9.68	14.94
coral polyp · control treatment	16	16	16.23	30.28
coral polyp · oil and dispersant treatment	16	16	16.00	25.33
coral polyp · oil treatment	16	16	12.17	29.38
coral polyp · dispersant treatment	16	16	17.76	30.74
Polyp	10	10	4.78	7.73

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.50
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.03
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.35
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.06
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.41
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.37
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.05
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.78
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.67
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.18
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.85
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.82
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.58
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.40
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.23
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.81
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.40
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.42
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.94
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.87
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.78
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.72
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.64
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.52
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.42
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.50
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.92
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.66
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.25
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.92
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.57
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.03
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.43
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.09
SRR11359512	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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.28
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.01
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.67
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.54
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.92
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.87
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.50
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.39
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.28
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.34
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.99
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.43
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.21
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.06
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.37
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.77
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.33
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.55
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.30
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.11
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.87
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.69
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.25
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.41
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.63
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.73
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.38
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.54
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.34
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.81
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.81
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.28
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.38
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.62
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.09
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.04
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.01
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.82
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.46
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.25
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.86
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.63
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.51
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.13
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.40
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.51
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.24
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.75
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.74
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.42
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.90
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.79
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.90
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.71
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.43
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.32
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.13
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.43
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.03
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.98
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.10
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.55
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.13
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.57
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.73
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.71
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.24
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.82
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.81
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.40
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.10
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.99
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.24
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.72

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.