Gene detail

Detailed information of OS493_038967-T1 in Lophelia pertusa

Genomic Location: scaffold_826:750...6031
NR annotation: KAJ7369442.1, Peroxisomal membrane protein PAS20 [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
Q92968	Peroxisomal membrane protein PEX13 OS=Homo sapiens OX=9606 GN=PEX13 PE=1 SV=2
Q9D0K1	Peroxisomal membrane protein PEX13 OS=Mus musculus OX=10090 GN=Pex13 PE=1 SV=1
D4A2Y9	Peroxisomal membrane protein PEX13 OS=Rattus norvegicus OX=10116 GN=Pex13 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006893 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04088 all species →	Peroxin-13_N	Peroxin 13, N-terminal region	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR035463 all species →	Family	Peroxin 13	Interproscan
IPR007223 all species →	Domain	Peroxin 13, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19332 all species →	PEROXISOMAL MEMBRANE PROTEIN PEX13	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005777 all species →	Cellular Component	peroxisome	Interproscan
GO:0005778 all species →	Cellular Component	peroxisomal membrane	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0016560 all species →	Biological Process	protein import into peroxisome matrix, docking	Interproscan
GO:1990429 all species →	Cellular Component	peroxisomal importomer complex	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_038967-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_038967-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

109TPM > 0

7Conditions

7.7Max TPM

3.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3.77	7.49
polyp at pH7 6	18	18	4.37	7.65
coral polyp · control treatment	16	16	3.57	7.34
coral polyp · oil and dispersant treatment	16	16	4.07	6.70
coral polyp · oil treatment	16	16	3.35	7.68
coral polyp · dispersant treatment	16	16	3.86	6.49
Polyp	10	9	3.40	7.27

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	-	7.49
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.83
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.35
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.89
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.59
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.29
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.28
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.15
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.91
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.82
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.04
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.99
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.45
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.38
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.36
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.88
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.61
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.56
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.65
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.39
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.35
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.30
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.29
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.76
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.52
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.20
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.01
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.98
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.79
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.48
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.73
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.56
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.48
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.42
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.91
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.87
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.34
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.62
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.36
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.33
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.66
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.93
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.41
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.20
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.17
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.96
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.49
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.45
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.49
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.25
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.12
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.42
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.70
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.87
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.85
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.81
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.05
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.76
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.74
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.73
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.69
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.03
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.87
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.19
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.06
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.89
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.97
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.90
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.68
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.85
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.24
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.86
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.60
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.53
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.35
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.93
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.98
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.96
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.80
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.93
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.89
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.86
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.59
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.48
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.49
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.81
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.54
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.20
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.14
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.96
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.20
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.52
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.46
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.42
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.31
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.03
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.66
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.47
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.35
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.18
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.27
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.29
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.19
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.69
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.67
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.66
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.81
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.43
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.