Gene detail

Detailed information of OS493_003905-T1 in Lophelia pertusa

Genomic Location: scaffold_8:230916...233231
NR annotation: KAJ7386947.1, Mpv17 / PMP22 [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
P42925	Peroxisomal membrane protein 2 OS=Mus musculus OX=10090 GN=Pxmp2 PE=1 SV=2
Q07066	Peroxisomal membrane protein 2 OS=Rattus norvegicus OX=10116 GN=Pxmp2 PE=1 SV=2
Q2KIY1	Peroxisomal membrane protein 2 OS=Bos taurus OX=9913 GN=PXMP2 PE=2 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001094 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04117 all species →	Mpv17_PMP22	Mpv17 / PMP22 family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007248 all species →	Family	Mpv17/PMP22	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11266 all species →	PEROXISOMAL MEMBRANE PROTEIN 2, PXMP2 MPV17	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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_003905-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_003905-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

37.3Max TPM

18.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	22.78	32.67
polyp at pH7 6	18	18	24.42	36.43
coral polyp · control treatment	16	16	18.70	37.32
coral polyp · oil and dispersant treatment	16	16	13.44	31.36
coral polyp · oil treatment	16	16	19.05	37.02
coral polyp · dispersant treatment	16	16	15.19	24.24
Polyp	10	9	12.41	26.64

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	-	32.67
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.75
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.41
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.14
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.33
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.51
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.69
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.38
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.38
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.65
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.55
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.80
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.46
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.92
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.17
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.90
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.48
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.89
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.43
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.11
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.05
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.78
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.74
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.29
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.82
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.82
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.65
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.13
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.83
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.81
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.32
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.81
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.64
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.31
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.85
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.27
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.32
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.26
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.44
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.94
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.26
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.58
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.57
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.33
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.44
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.64
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.39
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.52
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.64
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.55
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.41
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.83
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.36
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.90
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.31
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.30
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.21
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.11
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.57
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.99
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.09
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.96
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.60
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.91
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.54
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.58
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.38
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.21
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.02
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.31
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.01
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.17
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.20
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.73
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.95
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.83
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.76
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.37
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.73
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.45
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.42
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.17
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.04
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.67
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.24
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.22
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.55
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.52
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.16
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.09
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.71
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.66
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.14
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.75
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.60
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.46
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.29
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.07
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.90
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.75
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	26.64
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	21.61
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	16.11
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	14.78
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.55
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	12.34
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	11.28
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.66
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.09
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.