Gene detail

Detailed information of OS493_005069-T1 in Lophelia pertusa

Genomic Location: scaffold_10:2530435...2539348
NR annotation: KAJ7374722.1, 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
Q9HGM3	Mitochondrial inner membrane m-AAA protease component yta12 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=yta12 PE=3 SV=1
Q9Y4W6	Mitochondrial inner membrane m-AAA protease component AFG3L2 OS=Homo sapiens OX=9606 GN=AFG3L2 PE=1 SV=2
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
PF00004 all species →	AAA	ATPase family associated with various cellular activities (AAA)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003960 all species →	Conserved_site	ATPase, AAA-type, conserved site	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR050928 all species →	Family	ATP-dependent Zinc Metalloprotease	Interproscan
IPR003959 all species →	Domain	ATPase, AAA-type, core	Interproscan
IPR003593 all species →	Domain	AAA+ ATPase domain	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0016887 all species →	Molecular Function	ATP hydrolysis activity	Interproscan
GO:0004222 all species →	Molecular Function	metalloendopeptidase activity	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_005069-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_005069-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

150.3Max TPM

42.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	22.24	37.82
polyp at pH7 6	18	18	29.54	40.88
coral polyp · control treatment	16	16	53.45	149.24
coral polyp · oil and dispersant treatment	16	16	86.31	150.35
coral polyp · oil treatment	16	16	39.58	57.97
coral polyp · dispersant treatment	16	16	39.96	114.63
Polyp	10	10	26.82	48.68

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	-	37.82
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.27
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.51
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.55
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.00
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.95
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.95
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.95
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.93
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.56
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.47
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.92
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.87
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.34
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.64
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.19
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.03
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.44
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.88
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.55
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.30
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.96
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.75
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.55
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.87
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.14
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.77
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.36
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.28
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.65
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.49
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.48
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.44
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.06
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.91
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.21
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	149.24
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	80.51
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	70.24
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.79
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.01
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.42
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.46
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.40
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.10
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.87
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.94
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.54
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.07
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.81
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.62
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.11
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	150.35
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	142.14
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	131.07
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	109.11
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	103.10
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	100.54
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	92.35
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	79.87
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	70.65
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.09
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.50
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.99
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.22
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.41
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.98
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.67
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.97
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.89
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.41
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.18
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.34
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.41
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.90
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.94
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.03
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.18
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.42
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.30
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.97
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.91
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.97
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.44
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	114.63
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.19
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.06
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.51
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.49
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.37
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.62
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.26
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.03
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.27
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.11
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.37
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.50
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.37
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.31
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.37
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	48.68
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	33.76
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	31.64
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	28.38
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	25.54
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	25.27
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	21.93
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	21.93
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	18.53
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.54

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.