Gene detail

Detailed information of OS493_034959-T1 in Lophelia pertusa

Genomic Location: scaffold_305:179772...185771
NR annotation: KAJ7351863.1, Beta-lactamase-like protein 2 [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
Q0V9A9	Endoribonuclease LACTB2 OS=Xenopus tropicalis OX=8364 GN=lactb2 PE=2 SV=1
Q6NYF0	Endoribonuclease LACTB2 OS=Danio rerio OX=7955 GN=lactb2 PE=2 SV=1
Q5XGR8	Endoribonuclease LACTB2 OS=Xenopus laevis OX=8355 GN=lactb2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005081 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17778 all species →	BLACT_WH	Beta-lactamase associated winged helix domain	Domain	Interproscan
PF00753 all species →	Lactamase_B	Metallo-beta-lactamase superfamily	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001279 all species →	Domain	Metallo-beta-lactamase	Interproscan
IPR036866 all species →	Homologous_superfamily	Ribonuclease Z/Hydroxyacylglutathione hydrolase-like	Interproscan
IPR050662 all species →	Family	Secondary metabolite biosynthesis-associated thioesterase	Interproscan
IPR041516 all species →	Domain	LACTB2, winged helix domain	Interproscan
IPR036388 all species →	Homologous_superfamily	Winged helix-like DNA-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23131 all species →	ENDORIBONUCLEASE LACTB2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003727 all species →	Molecular Function	single-stranded RNA binding	Interproscan
GO:0004521 all species →	Molecular Function	RNA endonuclease activity	Interproscan
GO:0005759 all species →	Cellular Component	mitochondrial matrix	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
K16639	LACTB2; endoribonuclease LACTB2	EC:3.1.27.-	Mitochondrial biogenesis	ko03029	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_034959-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

18.9Max TPM

6.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.38	8.61
polyp at pH7 6	18	18	6.91	13.07
coral polyp · control treatment	16	16	8.38	18.36
coral polyp · oil and dispersant treatment	16	16	6.18	18.95
coral polyp · oil treatment	16	16	7.30	13.31
coral polyp · dispersant treatment	16	16	6.89	13.43
Polyp	10	10	6.65	15.88

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	-	8.61
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.10
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.67
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.47
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.32
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.17
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.05
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.99
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.66
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.44
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.92
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.86
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.31
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.24
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.01
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.89
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.61
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.52
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.07
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.56
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.55
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.50
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.41
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.18
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.97
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.92
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.83
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.26
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.26
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.96
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.85
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.81
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.61
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.37
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.16
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.06
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.36
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.86
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.39
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.24
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.97
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.61
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.25
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.65
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.43
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.40
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.25
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.74
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.61
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.32
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.62
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.40
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.95
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.31
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.37
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.97
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.60
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.45
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.08
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.87
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.50
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.58
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.25
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.80
SRR16705978	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	2.28
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.92
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.35
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.31
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.70
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.68
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.87
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.51
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.09
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.83
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.65
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.45
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.24
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.87
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.70
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.40
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.51
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.09
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.95
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.43
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.15
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.45
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.25
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.59
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.10
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.08
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.40
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.86
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.51
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.65
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.74
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.01
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.58
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.20
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.19
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	15.88
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.64
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.51
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.30
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.64
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.43
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.34
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.64
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.72
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.40

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.