Gene detail

Detailed information of OS493_029388-T1 in Lophelia pertusa

Genomic Location: scaffold_178:473897...474520
NR annotation: KAJ7370844.1, Putative beta-lactamase-like 1 [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
A8MY62	Putative beta-lactamase-like 1 OS=Homo sapiens OX=9606 GN=LACTBL1 PE=1 SV=2
P0AD71	D-alanyl-D-alanine-carboxypeptidase/endopeptidase AmpH OS=Escherichia coli O157:H7 OX=83334 GN=ampH PE=3 SV=1
P0AD70	D-alanyl-D-alanine-carboxypeptidase/endopeptidase AmpH OS=Escherichia coli (strain K12) OX=83333 GN=ampH PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000640 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00144 all species →	Beta-lactamase	Beta-lactamase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012338 all species →	Homologous_superfamily	Beta-lactamase/transpeptidase-like	Interproscan
IPR051478 all species →	Family	Beta-lactamase-like Antibiotic Biosynthesis/Resistance	Interproscan
IPR001466 all species →	Domain	Beta-lactamase-related	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22935 all species →	PENICILLIN-BINDING PROTEIN	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_029388-T1. This gene does have a gene model — the search simply returned no hit.

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

No KEGG orthology assignment for OS493_029388-T1.

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_029388-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

104TPM > 0

7Conditions

8.7Max TPM

2.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	2.46	6.27
polyp at pH7 6	18	16	2.41	7.44
coral polyp · control treatment	16	16	2.73	7.49
coral polyp · oil and dispersant treatment	16	15	2.33	7.38
coral polyp · oil treatment	16	16	2.80	8.75
coral polyp · dispersant treatment	16	15	2.01	6.73
Polyp	10	8	0.83	1.79

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.27
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.85
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.21
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.38
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.17
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.89
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.55
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.39
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.08
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.04
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.93
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.69
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.63
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.59
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.43
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.94
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.71
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.54
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.44
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.05
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.45
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.75
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.53
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.07
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.84
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.56
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.93
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.90
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.83
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.71
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.47
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.41
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.28
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.20
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
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.49
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.32
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.61
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.01
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.85
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.70
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.79
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.66
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.45
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.94
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.82
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.30
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.15
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.33
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.21
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.12
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.38
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.32
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.43
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.35
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.98
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.01
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.97
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.63
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.22
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.17
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.04
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.86
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.42
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.34
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.11
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.75
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.34
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.69
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.36
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.62
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.09
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.90
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.84
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.53
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.47
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.42
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.32
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.45
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.40
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.37
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.33
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.73
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.90
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.53
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.27
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.49
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.37
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.37
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.35
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.32
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.77
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.71
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.57
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.39
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.26
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.15
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.79
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.43
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.32
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.11
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.02
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.71
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.56
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.36
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
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.