Gene detail

Detailed information of OS493_005068-T1 in Lophelia pertusa

Genomic Location: scaffold_10:2525320...2530026
NR annotation: KAJ7374721.1, AFG3-like protein 2 [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
Q9Y4W6	Mitochondrial inner membrane m-AAA protease component AFG3L2 OS=Homo sapiens OX=9606 GN=AFG3L2 PE=1 SV=2
Q2KJI7	Mitochondrial inner membrane m-AAA protease component AFG3L2 OS=Bos taurus OX=9913 GN=AFG3L2 PE=2 SV=1
Q8JZQ2	Mitochondrial inner membrane m-AAA protease component AFG3L2 OS=Mus musculus OX=10090 GN=Afg3l2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001548 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17862 all species →	AAA_lid_3	AAA+ lid domain	Domain	Interproscan
PF01434 all species →	Peptidase_M41	Peptidase family M41	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR041569 all species →	Domain	AAA ATPase, AAA+ lid domain	Interproscan
IPR037219 all species →	Homologous_superfamily	Peptidase M41-like	Interproscan
IPR000642 all species →	Domain	Peptidase M41	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR050928 all species →	Family	ATP-dependent Zinc Metalloprotease	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43655 all species →	ATP-DEPENDENT PROTEASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004176 all species →	Molecular Function	ATP-dependent peptidase activity	Interproscan
GO:0004222 all species →	Molecular Function	metalloendopeptidase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006508 all species →	Biological Process	proteolysis	Interproscan
GO:0005745 all species →	Cellular Component	m-AAA complex	Interproscan
GO:0034982 all species →	Biological Process	mitochondrial protein processing	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_005068-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_005068-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

329.3Max TPM

105.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	72.09	106.01
polyp at pH7 6	18	18	97.60	139.95
coral polyp · control treatment	16	16	107.22	220.01
coral polyp · oil and dispersant treatment	16	16	181.10	329.32
coral polyp · oil treatment	16	16	94.45	135.12
coral polyp · dispersant treatment	16	16	80.95	311.85
Polyp	10	10	116.01	228.32

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	-	106.01
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	102.78
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	84.01
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	81.27
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	79.57
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	75.09
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	74.45
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	74.09
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	67.27
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	67.20
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	63.99
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	63.74
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	63.03
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	62.71
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.13
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.93
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.43
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.86
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	139.95
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	138.87
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	130.32
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	129.91
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	123.62
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	118.24
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	115.23
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	113.51
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	102.72
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	92.23
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	85.96
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	77.53
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	74.49
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	69.82
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	63.07
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	61.44
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	61.01
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	58.90
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	220.01
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	199.76
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	149.33
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	123.48
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	122.58
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	96.26
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	93.38
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	89.32
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	83.52
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	81.65
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	81.40
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	80.85
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	79.57
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	78.24
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.04
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.15
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	329.32
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	289.49
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	282.07
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	269.29
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	240.51
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	219.74
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	216.54
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	172.42
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	135.47
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	122.23
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	113.87
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	109.46
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	108.16
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	105.09
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	95.32
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.64
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	135.12
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	129.37
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	128.54
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	121.73
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	117.70
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	106.97
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	91.47
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	90.62
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	81.31
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	80.91
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.95
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	74.73
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	74.14
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.88
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	68.08
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.71
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	311.85
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	185.33
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	92.12
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	74.71
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	69.41
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.29
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.95
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.52
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.87
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.06
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.94
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.02
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.12
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.60
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.42
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.94
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	228.32
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	150.75
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	150.29
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	131.71
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	113.74
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	110.82
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	86.55
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	74.03
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	67.41
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	46.43

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.