Gene detail

Detailed information of OS493_029386-T1 in Lophelia pertusa

Genomic Location: scaffold_178:452099...454203
NR annotation: KAJ7370842.1, 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
Q7KWX1	Beta-lactamase-like protein 1 OS=Dictyostelium discoideum OX=44689 GN=DDB_G0276787 PE=3 SV=1
P0AD71	D-alanyl-D-alanine-carboxypeptidase/endopeptidase AmpH OS=Escherichia coli O157:H7 OX=83334 GN=ampH PE=3 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
IPR001466 all species →	Domain	Beta-lactamase-related	Interproscan
IPR012338 all species →	Homologous_superfamily	Beta-lactamase/transpeptidase-like	Interproscan
IPR051478 all species →	Family	Beta-lactamase-like Antibiotic Biosynthesis/Resistance	Interproscan

PANTHER

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

Gene Ontology

No Gene Ontology signature was detected for OS493_029386-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_029386-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_029386-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

16.9Max TPM

2.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	2.20	3.66
polyp at pH7 6	18	18	2.50	4.61
coral polyp · control treatment	16	15	2.68	6.54
coral polyp · oil and dispersant treatment	16	13	2.86	16.83
coral polyp · oil treatment	16	15	4.86	16.86
coral polyp · dispersant treatment	16	16	2.02	8.08
Polyp	10	10	2.40	10.31

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	-	3.66
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.59
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.57
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.11
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.80
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.80
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.57
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.47
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.46
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.42
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.68
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.68
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.66
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.63
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.50
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.09
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.93
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.61
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.11
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.86
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.83
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.75
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.67
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.10
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.82
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.51
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.11
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.09
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.58
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.44
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.31
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.18
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.15
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.06
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.87
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.54
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.30
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.35
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.36
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.09
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.04
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.80
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.11
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.96
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.52
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.23
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.09
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.81
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.59
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.17
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.83
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.69
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.97
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.14
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.87
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.82
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.69
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.33
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.83
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.48
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.47
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.46
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.22
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.86
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.67
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.24
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.57
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.42
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.95
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.05
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.48
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.44
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.26
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.06
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.03
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.78
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.74
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.24
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.08
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.39
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.14
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.61
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.33
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.72
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.44
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.28
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.06
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.99
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.86
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.60
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.54
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.13
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.10
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.04
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	10.31
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.46
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.32
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.70
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.91
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.72
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.53
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.48
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.46
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.17

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.