Gene detail

Detailed information of OS493_038325-T1 in Lophelia pertusa

Genomic Location: scaffold_556:1399...7344
NR annotation: KAJ7369523.1, hypothetical protein OS493_038325, partial [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
P05166	Propionyl-CoA carboxylase beta chain, mitochondrial OS=Homo sapiens OX=9606 GN=PCCB PE=1 SV=3
P07633	Propionyl-CoA carboxylase beta chain, mitochondrial OS=Rattus norvegicus OX=10116 GN=Pccb PE=2 SV=1
Q2TBR0	Propionyl-CoA carboxylase beta chain, mitochondrial OS=Bos taurus OX=9913 GN=PCCB PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004376 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01039 all species →	Carboxyl_trans	Carboxyl transferase domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR051047 all species →	Family	Acyl-CoA Carboxylase Beta Subunit	Interproscan
IPR029045 all species →	Homologous_superfamily	ClpP/crotonase-like domain superfamily	Interproscan
IPR011762 all species →	Domain	Acetyl-coenzyme A carboxyltransferase, N-terminal	Interproscan
IPR034733 all species →	Domain	Acetyl-coenzyme A carboxylase carboxyl transferase subunit beta	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43842 all species →	PROPIONYL-COA CARBOXYLASE BETA CHAIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004658 all species →	Molecular Function	propionyl-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_038325-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_038325-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

101TPM > 0

7Conditions

24.5Max TPM

6.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	5.13	9.83
polyp at pH7 6	18	12	4.10	8.87
coral polyp · control treatment	16	16	9.30	18.35
coral polyp · oil and dispersant treatment	16	16	8.45	24.50
coral polyp · oil treatment	16	16	7.19	12.17
coral polyp · dispersant treatment	16	16	7.41	13.52
Polyp	10	8	2.41	4.67

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.83
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.30
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.06
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.98
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.25
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.20
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.13
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.87
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.45
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.90
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.26
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.89
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.86
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.75
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.61
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.97
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.02
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.87
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.98
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.59
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.58
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.23
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.15
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.89
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.86
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.53
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.81
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.08
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.15
SRR11359500	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
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.35
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.79
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.22
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.89
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.69
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.48
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.82
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.40
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.28
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.11
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.32
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.12
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.67
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.60
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.66
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.46
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.50
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.03
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.53
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.17
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.38
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.35
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.81
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.59
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.00
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.50
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.33
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.01
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.46
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.41
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.94
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.15
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.17
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.75
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.33
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.58
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.92
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.69
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.33
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.05
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.91
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.83
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.66
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.64
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.09
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.52
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.56
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.03
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.52
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.05
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.92
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.95
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.32
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.07
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.05
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.05
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.42
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.07
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.86
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.70
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.55
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.65
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.85
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.45
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.67
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.31
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.95
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.26
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.53
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.43
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.89
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.04
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
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.