Gene detail

Detailed information of OS493_027528-T1 in Lophelia pertusa

Genomic Location: scaffold_150:883743...888805
NR annotation: KAJ7326574.1, Ribonuclease H1 [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
O60930	Ribonuclease H1 OS=Homo sapiens OX=9606 GN=RNASEH1 PE=1 SV=2
O70338	Ribonuclease H1 OS=Mus musculus OX=10090 GN=Rnaseh1 PE=2 SV=1
Q5BK46	Ribonuclease H1 OS=Rattus norvegicus OX=10116 GN=Rnaseh1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004905 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01693 all species →	Cauli_VI	Caulimovirus viroplasmin	Family	Interproscan
PF00075 all species →	RNase_H	RNase H	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR009027 all species →	Homologous_superfamily	Large ribosomal subunit protein bL9/RNase H1, N-terminal	Interproscan
IPR011320 all species →	Domain	Ribonuclease H1, N-terminal	Interproscan
IPR002156 all species →	Domain	Ribonuclease H domain	Interproscan
IPR050092 all species →	Family	Ribonuclease H	Interproscan
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan
IPR037056 all species →	Homologous_superfamily	Ribonuclease H1, N-terminal domain superfamily	Interproscan
IPR036397 all species →	Homologous_superfamily	Ribonuclease H superfamily	Interproscan
IPR017067 all species →	Family	Ribonuclease H1, eukaryote	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10642 all species →	RIBONUCLEASE H1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0004523 all species →	Molecular Function	RNA-DNA hybrid ribonuclease activity	Interproscan
GO:0043137 all species →	Biological Process	DNA replication, removal of RNA primer	Interproscan
GO:0090502 all species →	Biological Process	obsolete RNA phosphodiester bond hydrolysis, endonucleolytic	Interproscan
GO:0000287 all species →	Molecular Function	magnesium ion binding	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
K03469	rnhA, RNASEH1; ribonuclease HI	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_027528-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

110TPM > 0

7Conditions

25.3Max TPM

8.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.98	16.42
polyp at pH7 6	18	18	11.26	17.07
coral polyp · control treatment	16	16	7.83	25.33
coral polyp · oil and dispersant treatment	16	16	5.85	21.17
coral polyp · oil treatment	16	16	8.24	14.67
coral polyp · dispersant treatment	16	16	4.95	10.20
Polyp	10	10	11.34	19.22

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.42
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.46
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.58
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.06
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.99
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.19
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.40
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.30
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.14
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.04
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.89
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.86
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.06
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.92
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.47
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.89
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.60
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.40
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.07
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.04
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.99
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.10
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.89
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.53
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.02
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.63
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.40
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.15
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.67
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.70
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.24
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.90
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.80
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.74
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.67
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.24
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.33
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.95
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.37
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.77
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.35
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.60
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.09
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.93
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.91
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.05
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.67
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.37
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.06
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.61
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.60
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.61
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.17
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.54
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.46
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.71
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.03
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.66
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.09
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.01
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.89
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.62
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.33
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.18
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.05
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.73
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.24
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.82
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.67
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.08
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.67
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.60
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.84
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.29
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.03
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.78
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.77
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.50
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.06
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.81
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.60
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.73
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.51
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.99
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.20
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.85
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.25
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.88
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.76
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.23
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.18
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.97
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.90
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.69
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.27
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.79
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.71
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.63
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.51
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.34
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	19.22
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	17.40
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	15.43
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	14.39
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	13.74
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.89
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	8.19
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.99
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.74
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.37

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.