Gene detail

Detailed information of OS493_015348-T1 in Lophelia pertusa

Genomic Location: scaffold_45:2248995...2350236
NR annotation: KAJ7379553.1, Sterile alpha motif [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
O35711	Liprin-beta-2 OS=Mus musculus OX=10090 GN=Ppfibp2 PE=1 SV=3
Q8C8U0	Liprin-beta-1 OS=Mus musculus OX=10090 GN=Ppfibp1 PE=1 SV=3
Q86W92	Liprin-beta-1 OS=Homo sapiens OX=9606 GN=PPFIBP1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003825 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_015348-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR029515 all species →	Family	LAR-interacting protein, Liprin	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12587 all species →	LAR INTERACTING PROTEIN LIP -RELATED PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0007528 all species →	Biological Process	neuromuscular junction development	Interproscan
GO:0048786 all species →	Cellular Component	presynaptic active zone	Interproscan
GO:0050808 all species →	Biological Process	synapse organization	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

No KEGG orthology assignment for OS493_015348-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_015348-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

23.5Max TPM

7.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.45	7.94
polyp at pH7 6	18	18	5.74	8.05
coral polyp · control treatment	16	16	9.35	18.81
coral polyp · oil and dispersant treatment	16	16	10.23	23.47
coral polyp · oil treatment	16	16	8.09	15.75
coral polyp · dispersant treatment	16	16	11.60	17.28
Polyp	10	10	3.26	4.76

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.94
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.30
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.19
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.18
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.13
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.66
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.82
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.72
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.72
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.16
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.92
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.57
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.18
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.04
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.88
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.75
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.59
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.30
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.05
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.72
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.57
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.40
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.89
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.14
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.98
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.89
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.72
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.66
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.58
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.35
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.83
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.71
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.60
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.92
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.67
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.63
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.81
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.72
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.56
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.88
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.09
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.66
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.46
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.31
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.68
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.90
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.76
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.06
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.15
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.95
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.55
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.06
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.47
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.68
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.84
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.09
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.83
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.23
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.16
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.76
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.62
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.59
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.20
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.63
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.31
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.12
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.63
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.47
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.75
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.49
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.47
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.10
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.76
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.65
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.91
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.64
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.30
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.30
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.22
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.68
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.91
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.18
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.16
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.94
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.28
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.10
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.96
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.38
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.84
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.63
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.50
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.71
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.73
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.62
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.55
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.66
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.72
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.07
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.75
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.17
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.76
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.14
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.04
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.67
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.36
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.05
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.84
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.70
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.53
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.49

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.