Gene detail

Detailed information of OS493_018361-T1 in Lophelia pertusa

Genomic Location: scaffold_60:1961605...1962457
NR annotation: KAJ7333185.1, Methylcrotonoyl-CoA carboxylase subunit alpha, mitochondrial [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
P05115	Biotin carboxyl carrier protein of acetyl-CoA carboxylase (Fragment) OS=Solanum lycopersicum OX=4081 PE=2 SV=1
Q2QMG2	Methylcrotonoyl-CoA carboxylase subunit alpha, mitochondrial OS=Oryza sativa subsp. japonica OX=39947 GN=MCCA PE=2 SV=2
P0ABE0	Biotin carboxyl carrier protein of acetyl-CoA carboxylase OS=Escherichia coli O157:H7 OX=83334 GN=accB PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0017256 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00364 all species →	Biotin_lipoyl	Biotin-requiring enzyme	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001882 all species →	Binding_site	Biotin-binding site	Interproscan
IPR050856 all species →	Family	Biotin-dependent Carboxylase Complex	Interproscan
IPR000089 all species →	Domain	Biotin/lipoyl attachment	Interproscan
IPR011053 all species →	Homologous_superfamily	Single hybrid motif	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR18866 all species →	CARBOXYLASE:PYRUVATE/ACETYL-COA/PROPIONYL-COA CARBOXYLASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004485 all species →	Molecular Function	methylcrotonoyl-CoA carboxylase activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	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_018361-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_018361-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

89TPM > 0

7Conditions

11.9Max TPM

3.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	8	1.78	7.44
polyp at pH7 6	18	10	2.11	7.36
coral polyp · control treatment	16	16	5.62	8.93
coral polyp · oil and dispersant treatment	16	14	3.75	7.98
coral polyp · oil treatment	16	16	5.69	7.76
coral polyp · dispersant treatment	16	16	2.70	4.91
Polyp	10	9	4.17	11.87

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.44
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.70
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.65
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.24
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.06
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.98
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.42
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.52
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.36
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.17
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.51
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.87
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.67
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.39
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.72
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.69
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.40
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.19
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.93
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.02
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.78
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.25
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.31
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.22
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.19
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.05
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.57
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.16
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.93
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.08
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.91
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.57
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.02
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.98
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.63
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.47
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.23
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.22
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.16
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.91
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.89
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.66
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.05
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.05
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.02
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.01
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.65
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.76
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.74
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.80
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.61
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.58
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.20
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.20
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.76
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.65
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.30
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.29
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.86
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.57
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.27
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.99
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.52
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.91
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.74
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.11
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.64
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.49
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.17
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.92
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.85
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.64
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.98
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.90
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.86
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.44
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.35
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.19
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.06
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	11.87
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.45
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.25
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.59
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.38
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.10
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.15
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.05
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.85
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.