Gene detail

Detailed information of OS493_037731-T1 in Lophelia pertusa

Genomic Location: scaffold_455:56839...62143
NR annotation: KAJ7350211.1, 3'-5' exoribonuclease 1 [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
Q7TMF2	3'-5' exoribonuclease 1 OS=Mus musculus OX=10090 GN=Eri1 PE=1 SV=2
Q5FVR4	3'-5' exoribonuclease 1 OS=Rattus norvegicus OX=10116 GN=Eri1 PE=2 SV=1
Q8IV48	3'-5' exoribonuclease 1 OS=Homo sapiens OX=9606 GN=ERI1 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001739 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02037 all species →	SAP	SAP domain	Domain	Interproscan
PF00929 all species →	RNase_T	Exonuclease	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003034 all species →	Domain	SAP domain	Interproscan
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan
IPR036397 all species →	Homologous_superfamily	Ribonuclease H superfamily	Interproscan
IPR013520 all species →	Domain	Exonuclease, RNase T/DNA polymerase III	Interproscan
IPR047201 all species →	Domain	ERI-1-like, DEDDh 3'-5' exonuclease domain	Interproscan
IPR036361 all species →	Homologous_superfamily	SAP domain superfamily	Interproscan
IPR051274 all species →	Family	3'-5' Exoribonuclease	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23044 all species →	3'-5' EXONUCLEASE ERI1-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0000175 all species →	Molecular Function	3'-5'-RNA exonuclease activity	Interproscan
GO:0000467 all species →	Biological Process	exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	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
K18416	THEX1, ERI1; 3'-5' exoribonuclease 1	EC:3.1.-.-	Chromosome and associated proteins	ko03036	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_037731-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

11.9Max TPM

4.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.14	8.73
polyp at pH7 6	18	18	6.14	11.90
coral polyp · control treatment	16	16	5.82	11.64
coral polyp · oil and dispersant treatment	16	16	3.94	7.00
coral polyp · oil treatment	16	16	5.03	9.10
coral polyp · dispersant treatment	16	16	3.09	6.98
Polyp	10	9	3.77	6.72

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	-	8.73
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.86
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.99
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.81
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.72
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.63
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.53
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.33
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.22
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.10
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.95
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.95
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.89
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.80
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.76
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.72
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.27
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.31
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.90
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.65
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.44
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.88
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.73
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.52
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.48
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.24
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.05
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.83
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.81
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.75
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.25
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.21
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.01
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.64
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.84
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.36
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.64
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.64
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.58
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.53
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.11
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.55
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.43
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.80
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.76
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.61
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.19
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.54
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.93
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.81
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.44
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.56
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.31
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.10
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.96
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.18
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.05
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.69
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.26
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.37
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.09
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.93
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.51
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.15
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.70
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.59
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.09
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.10
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.05
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.69
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.13
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.70
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.53
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.18
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.40
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.39
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.10
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.88
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.69
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.03
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.68
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.39
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.55
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.98
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.42
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.51
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.38
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.97
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.79
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.58
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.45
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.84
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.39
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.10
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.84
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.10
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.88
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.78
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.36
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.72
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.56
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.09
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.66
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.27
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.98
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.90
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.78
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.67
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.