Gene detail

Detailed information of OS493_018364-T1 in Lophelia pertusa

Genomic Location: scaffold_60:1999371...2007068
NR annotation: KAJ7333188.1, hypothetical protein OS493_018364 [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
Q5I0C3	Methylcrotonoyl-CoA carboxylase subunit alpha, mitochondrial OS=Rattus norvegicus OX=10116 GN=Mccc1 PE=1 SV=1
Q96RQ3	Methylcrotonoyl-CoA carboxylase subunit alpha, mitochondrial OS=Homo sapiens OX=9606 GN=MCCC1 PE=1 SV=3
Q99MR8	Methylcrotonoyl-CoA carboxylase subunit alpha, mitochondrial OS=Mus musculus OX=10090 GN=Mccc1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001401 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00364 all species →	Biotin_lipoyl	Biotin-requiring enzyme	Domain	Interproscan
PF02785 all species →	Biotin_carb_C	Biotin carboxylase C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000089 all species →	Domain	Biotin/lipoyl attachment	Interproscan
IPR005482 all species →	Domain	Biotin carboxylase, C-terminal	Interproscan
IPR011764 all species →	Domain	Biotin carboxylation domain	Interproscan
IPR011054 all species →	Homologous_superfamily	Rudiment single hybrid motif	Interproscan
IPR001882 all species →	Binding_site	Biotin-binding site	Interproscan
IPR011053 all species →	Homologous_superfamily	Single hybrid motif	Interproscan
IPR050856 all species →	Family	Biotin-dependent Carboxylase Complex	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_018364-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_018364-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

101.1Max TPM

25.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	39.30	90.57
polyp at pH7 6	18	18	36.63	101.13
coral polyp · control treatment	16	16	19.75	45.92
coral polyp · oil and dispersant treatment	16	16	14.64	29.41
coral polyp · oil treatment	16	16	24.26	42.29
coral polyp · dispersant treatment	16	16	8.62	21.72
Polyp	10	10	34.15	49.49

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	90.57
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	84.19
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	81.89
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	80.19
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	79.91
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	78.32
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.56
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.57
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.09
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.13
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.46
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.59
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.77
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.67
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.11
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.71
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.44
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.21
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	101.13
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	95.68
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	82.74
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	79.74
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.12
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.95
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.05
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.67
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.93
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.57
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.16
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.95
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.09
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.03
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.37
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.24
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.01
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.90
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.92
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.13
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.14
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.53
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.20
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.37
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.90
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.48
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.49
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.03
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.03
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.62
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.49
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.17
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.44
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.04
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.41
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.71
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.67
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.47
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.96
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.30
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.16
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.88
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.72
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.77
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.34
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.46
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.27
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.08
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.92
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.15
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.29
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.02
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.28
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.71
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.95
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.64
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.34
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.77
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.36
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.59
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.59
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.35
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.07
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.60
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.27
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.35
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.72
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.13
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.37
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.44
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.41
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.16
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.65
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.22
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.73
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.34
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.24
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.21
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.68
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.07
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.56
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	49.49
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	47.52
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	45.67
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	42.19
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	41.65
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	38.25
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	34.68
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	27.84
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.73
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.45

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.