Gene detail

Detailed information of OS493_010336-T1 in Lophelia pertusa

Genomic Location: scaffold_25:1133490...1142217
NR annotation: KAJ7392685.1, Double-strand break repair protein mre11a [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
Q61216	Double-strand break repair protein MRE11 OS=Mus musculus OX=10090 GN=Mre11 PE=1 SV=1
Q60HE6	Double-strand break repair protein MRE11 OS=Macaca fascicularis OX=9541 GN=MRE11 PE=2 SV=1
P49959	Double-strand break repair protein MRE11 OS=Homo sapiens OX=9606 GN=MRE11 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003776 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00149 all species →	Metallophos	Calcineurin-like phosphoesterase	Domain	Interproscan
PF04152 all species →	Mre11_DNA_bind	Mre11 DNA-binding presumed domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR038487 all species →	Homologous_superfamily	Mre11, capping domain	Interproscan
IPR003701 all species →	Family	DNA double-strand break repair protein Mre11	Interproscan
IPR004843 all species →	Domain	Calcineurin-like phosphoesterase domain, ApaH type	Interproscan
IPR029052 all species →	Homologous_superfamily	Metallo-dependent phosphatase-like	Interproscan
IPR041796 all species →	Domain	Mre11 nuclease, N-terminal metallophosphatase domain	Interproscan
IPR007281 all species →	Domain	Mre11, DNA-binding	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10139 all species →	DOUBLE-STRAND BREAK REPAIR PROTEIN MRE11	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004520 all species →	Molecular Function	DNA endonuclease activity	Interproscan
GO:0006302 all species →	Biological Process	double-strand break repair	Interproscan
GO:0008296 all species →	Molecular Function	3'-5'-DNA exonuclease activity	Interproscan
GO:0030870 all species →	Cellular Component	Mre11 complex	Interproscan
GO:0016787 all species →	Molecular Function	hydrolase activity	Interproscan
GO:0000014 all species →	Molecular Function	single-stranded DNA endodeoxyribonuclease activity	Interproscan
GO:0000723 all species →	Biological Process	telomere maintenance	Interproscan
GO:0000724 all species →	Biological Process	double-strand break repair via homologous recombination	Interproscan
GO:0006303 all species →	Biological Process	double-strand break repair via nonhomologous end joining	Interproscan
GO:0007095 all species →	Biological Process	mitotic G2 DNA damage checkpoint signaling	Interproscan
GO:0031573 all species →	Biological Process	mitotic intra-S DNA damage checkpoint signaling	Interproscan
GO:0035861 all species →	Cellular Component	site of double-strand break	Interproscan
GO:0042138 all species →	Biological Process	meiotic DNA double-strand break formation	Interproscan
GO:0097552 all species →	Biological Process	mitochondrial double-strand break repair via homologous recombination	Interproscan
GO:0004519 all species →	Molecular Function	endonuclease activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0030145 all species →	Molecular Function	manganese 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
K10865	MRE11; double-strand break repair protein MRE11	-	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_010336-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

28.9Max TPM

4.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.40	9.31
polyp at pH7 6	18	17	5.83	9.40
coral polyp · control treatment	16	16	6.04	22.29
coral polyp · oil and dispersant treatment	16	16	4.50	28.85
coral polyp · oil treatment	16	16	5.25	8.24
coral polyp · dispersant treatment	16	16	3.51	8.32
Polyp	10	9	2.63	5.05

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.31
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.74
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.19
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.45
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.36
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.99
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.64
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.63
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.18
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.71
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.32
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.02
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.93
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.82
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.79
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.72
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.35
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.11
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.40
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.23
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.34
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.55
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.14
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.58
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.13
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.91
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.90
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.75
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.35
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.31
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.15
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.07
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.93
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.61
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.57
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.29
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.78
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.35
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.12
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.99
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.09
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.98
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.91
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.62
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.85
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.31
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.63
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.05
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.81
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.42
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.42
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.85
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.34
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.57
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.46
SRR16706004	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	3.59
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.41
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.82
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.46
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.36
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.14
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.05
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.88
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.82
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.53
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.45
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.24
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.86
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.18
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.02
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.67
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.07
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.03
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.01
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.44
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.43
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.33
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.23
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.70
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.41
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.57
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.89
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.32
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.25
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.79
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.57
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.56
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.15
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.85
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.38
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.22
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.70
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.40
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.29
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.71
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.10
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.55
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.37
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.05
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.57
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.71
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.42
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.60
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.28
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.98
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.56
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.17
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.