Gene detail

Detailed information of OS493_034978-T1 in Lophelia pertusa

Genomic Location: scaffold_306:66915...71980
NR annotation: KAJ7321405.1, hypothetical protein OS493_034978 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010811 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16100 all species →	RMI2	RecQ-mediated genome instability protein 2	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR032245 all species →	Family	RecQ-mediated genome instability protein 2	Interproscan
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR33962 all species →	RECQ-MEDIATED GENOME INSTABILITY PROTEIN 2 RMI2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006281 all species →	Biological Process	DNA repair	Interproscan
GO:0016607 all species →	Cellular Component	nuclear speck	Interproscan
GO:0033045 all species →	Biological Process	regulation of sister chromatid segregation	Interproscan
GO:0043007 all species →	Biological Process	maintenance of rDNA	Interproscan
GO:2000042 all species →	Biological Process	negative regulation of double-strand break repair via homologous recombination	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
K15365	RMI2; RecQ-mediated genome instability protein 2	-	DNA repair and recombination proteins	ko03400	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_034978-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

45.5Max TPM

6.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.87	9.16
polyp at pH7 6	18	18	5.75	7.93
coral polyp · control treatment	16	16	8.44	45.49
coral polyp · oil and dispersant treatment	16	16	6.22	30.00
coral polyp · oil treatment	16	16	6.89	14.33
coral polyp · dispersant treatment	16	16	4.21	10.07
Polyp	10	10	5.52	8.15

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.16
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.38
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.36
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.74
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.29
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.23
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.69
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.15
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.98
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.87
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.51
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.35
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.85
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.76
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.73
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.53
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.44
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.57
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.93
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.80
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.80
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.69
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.62
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.52
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.71
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.52
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.36
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.13
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.81
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.93
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.97
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.86
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.49
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.47
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.00
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.88
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.49
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.43
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.65
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.37
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.14
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.06
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.95
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.33
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.99
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.76
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.38
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.05
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.14
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.12
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.70
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.49
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.00
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.07
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.43
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.02
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.49
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.86
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.10
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.70
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.63
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.61
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.61
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.15
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.10
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.11
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.73
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.87
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.33
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.85
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.61
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.99
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.91
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.76
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.45
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.37
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.74
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.48
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.98
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.94
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.86
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.99
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.29
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.75
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.07
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.68
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.67
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.21
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.60
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.25
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.74
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.92
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.04
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.38
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.33
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.93
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.51
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.31
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.27
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.41
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	8.15
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.23
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.15
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.56
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.40
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.23
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.16
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.91
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.89
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.54

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.