Gene detail

Detailed information of OS493_027771-T1 in Lophelia pertusa

Genomic Location: scaffold_154:56211...62031
NR annotation: KAJ7371083.1, Ribonuclease H2 subunit A [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
Q2TBT5	Ribonuclease H2 subunit A OS=Bos taurus OX=9913 GN=RNASEH2A PE=1 SV=1
Q9CWY8	Ribonuclease H2 subunit A OS=Mus musculus OX=10090 GN=Rnaseh2a PE=1 SV=2
Q5U209	Ribonuclease H2 subunit A OS=Rattus norvegicus OX=10116 GN=Rnaseh2a PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005910 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01351 all species →	RNase_HII	Ribonuclease HII	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan
IPR024567 all species →	Domain	Ribonuclease HII/HIII domain	Interproscan
IPR001352 all species →	Family	Ribonuclease HII/HIII	Interproscan
IPR023160 all species →	Homologous_superfamily	Ribonuclease HII, helix-loop-helix cap domain superfamily	Interproscan
IPR036397 all species →	Homologous_superfamily	Ribonuclease H superfamily	Interproscan
IPR004649 all species →	Family	Ribonuclease H2, subunit A	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10954 all species →	RIBONUCLEASE H2 SUBUNIT A	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004523 all species →	Molecular Function	RNA-DNA hybrid ribonuclease activity	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0006298 all species →	Biological Process	mismatch repair	Interproscan
GO:0032299 all species →	Cellular Component	ribonuclease H2 complex	Interproscan
GO:0043137 all species →	Biological Process	DNA replication, removal of RNA primer	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0016070 all species →	Biological Process	RNA metabolic process	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
K10743	RNASEH2A; ribonuclease H2 subunit A	EC:3.1.26.4	DNA replication proteins	ko03032	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_027771-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

95TPM > 0

7Conditions

18.7Max TPM

0.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	14	0.93	2.75
polyp at pH7 6	18	15	0.87	3.08
coral polyp · control treatment	16	15	1.50	18.70
coral polyp · oil and dispersant treatment	16	13	1.24	16.87
coral polyp · oil treatment	16	13	0.24	0.64
coral polyp · dispersant treatment	16	16	0.38	1.17
Polyp	10	9	1.07	2.52

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.75
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.53
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.76
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.52
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.38
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.22
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.14
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.13
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.94
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.81
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.63
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.45
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.42
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.14
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.08
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.86
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.70
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.07
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.90
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.89
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.79
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.66
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.61
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.60
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.59
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.55
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.54
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.48
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.41
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.70
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.80
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.57
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.54
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.53
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.46
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.43
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.43
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.40
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.32
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.24
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.23
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.19
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.06
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.06
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.87
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.86
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.40
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.30
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.30
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.30
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.23
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.16
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.13
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.12
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.06
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.06
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.05
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.64
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.54
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.53
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.48
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.27
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.22
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.22
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.20
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.20
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.19
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.19
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.15
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.09
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.17
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.93
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.55
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.54
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.52
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.41
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.31
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.26
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.26
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.23
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.23
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.17
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.17
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.16
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.09
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.05
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.52
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1.81
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.56
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.25
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.03
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.82
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.79
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.71
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.17
SRR7746667	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.