Gene detail

Detailed information of OS493_015351-T1 in Lophelia pertusa

Genomic Location: scaffold_45:2448424...2525984
NR annotation: KAJ7379555.1, neuromuscular junction development, partial [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
Q86W92	Liprin-beta-1 OS=Homo sapiens OX=9606 GN=PPFIBP1 PE=1 SV=2
Q8C8U0	Liprin-beta-1 OS=Mus musculus OX=10090 GN=Ppfibp1 PE=1 SV=3
O35711	Liprin-beta-2 OS=Mus musculus OX=10090 GN=Ppfibp2 PE=1 SV=3

Gene family

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

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00536 all species →	SAM_1	SAM domain (Sterile alpha motif)	Domain	Interproscan
PF07647 all species →	SAM_2	SAM domain (Sterile alpha motif)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001660 all species →	Domain	Sterile alpha motif domain	Interproscan
IPR037618 all species →	Domain	Liprin-beta, SAM domain repeat 2	Interproscan
IPR013761 all species →	Homologous_superfamily	Sterile alpha motif/pointed domain superfamily	Interproscan
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:0005515 all species →	Molecular Function	protein binding	Interproscan
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_015351-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_015351-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

106TPM > 0

7Conditions

30.4Max TPM

11.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.34	13.25
polyp at pH7 6	18	15	8.77	13.15
coral polyp · control treatment	16	16	13.20	23.61
coral polyp · oil and dispersant treatment	16	16	13.83	30.42
coral polyp · oil treatment	16	16	12.06	26.22
coral polyp · dispersant treatment	16	16	14.04	23.35
Polyp	10	9	5.63	10.10

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.25
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.03
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.99
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.48
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.91
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.65
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.53
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.43
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.89
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.60
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.59
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.38
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.26
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.69
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.19
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.18
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.08
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.07
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.15
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.14
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.64
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.62
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.97
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.61
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.34
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.32
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.00
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.07
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.06
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.81
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.38
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.15
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.56
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
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
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.61
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.39
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.08
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.07
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.06
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.17
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.50
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.42
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.73
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.64
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.20
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.10
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.79
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.59
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.30
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.57
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.42
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.74
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.20
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.48
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.54
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.77
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.71
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.77
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.75
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.70
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.08
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.92
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.75
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.18
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.93
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.31
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.22
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.90
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.42
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.02
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.96
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.37
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.14
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.45
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.32
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.07
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.98
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.30
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.08
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.55
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.36
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.78
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.35
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.65
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.45
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.45
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.70
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.45
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.81
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.81
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.47
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.26
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.64
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.42
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.11
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.56
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.19
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.33
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.10
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.18
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.75
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.57
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.43
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.30
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.82
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.65
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.44
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.