Gene detail

Detailed information of OS493_020193-T1 in Lophelia pertusa

Genomic Location: scaffold_73:1639701...1645068
NR annotation: KAJ7391163.1, 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
Q9D0K1	Peroxisomal membrane protein PEX13 OS=Mus musculus OX=10090 GN=Pex13 PE=1 SV=1
Q0P5B1	Peroxisomal membrane protein PEX13 OS=Bos taurus OX=9913 GN=PEX13 PE=2 SV=1
Q92968	Peroxisomal membrane protein PEX13 OS=Homo sapiens OX=9606 GN=PEX13 PE=1 SV=2

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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K13344	PEX13; peroxin-13	-	Peroxisome	ko04146	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_020193-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

39.9Max TPM

9.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.42	14.38
polyp at pH7 6	18	17	7.80	13.03
coral polyp · control treatment	16	16	11.02	17.67
coral polyp · oil and dispersant treatment	16	16	12.36	21.61
coral polyp · oil treatment	16	16	10.45	16.51
coral polyp · dispersant treatment	16	16	13.17	39.95
Polyp	10	10	4.66	8.61

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.38
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.80
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.45
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.98
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.58
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.32
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.55
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.76
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.68
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.54
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.43
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.81
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.55
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.50
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.36
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.17
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.63
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.01
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.03
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.76
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.99
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.42
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.15
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.87
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.38
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.02
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.55
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.70
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.68
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.57
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.59
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.06
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.56
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.22
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.82
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.67
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.51
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.12
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.51
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.22
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.01
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.44
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.95
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.74
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.43
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.65
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.41
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.74
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.32
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.73
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.80
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.61
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.59
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.14
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.81
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.68
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.65
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.38
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.02
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.21
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.88
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.01
SRR16705977	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	8.33
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.72
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.20
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.82
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.51
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.26
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.02
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.68
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.07
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.65
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.48
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.63
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.11
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.88
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.86
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.86
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.74
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.02
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.10
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.39
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.95
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.86
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.53
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.79
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.98
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.62
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.36
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.21
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.66
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.17
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.81
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.70
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.57
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.54
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.30
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.60
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.61
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.91
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.99
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.59
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.50
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.46
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.26
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.85
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.80
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.58

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.