Gene detail

Detailed information of OS493_012794-T1 in Lophelia pertusa

Genomic Location: scaffold_33:3170200...3172259
NR annotation: KAJ7380032.1, hypothetical protein OS493_012794 [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
Q29RK2	Pyruvate carboxylase, mitochondrial OS=Bos taurus OX=9913 GN=PC PE=2 SV=2
P11498	Pyruvate carboxylase, mitochondrial OS=Homo sapiens OX=9606 GN=PC PE=1 SV=2
Q05920	Pyruvate carboxylase, mitochondrial OS=Mus musculus OX=10090 GN=Pc PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003376 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02786 all species →	CPSase_L_D2	Carbamoyl-phosphate synthase L chain, ATP binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005479 all species →	Domain	Carbamoyl-phosphate synthetase large subunit-like, ATP-binding domain	Interproscan
IPR011764 all species →	Domain	Biotin carboxylation domain	Interproscan
IPR005930 all species →	Family	Pyruvate carboxylase	Interproscan
IPR011761 all species →	Domain	ATP-grasp fold	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43778 all species →	PYRUVATE CARBOXYLASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0004736 all species →	Molecular Function	pyruvate carboxylase activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006090 all species →	Biological Process	pyruvate metabolic process	Interproscan
GO:0006094 all species →	Biological Process	gluconeogenesis	Interproscan
GO:0046872 all species →	Molecular Function	metal ion binding	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_012794-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_012794-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

106TPM > 0

7Conditions

48.4Max TPM

19.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	16.93	23.96
polyp at pH7 6	18	16	16.19	28.99
coral polyp · control treatment	16	16	27.74	48.45
coral polyp · oil and dispersant treatment	16	16	18.89	30.68
coral polyp · oil treatment	16	16	20.40	36.27
coral polyp · dispersant treatment	16	16	27.18	36.56
Polyp	10	8	7.20	13.30

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	-	23.96
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.43
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.39
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.06
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.84
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.44
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.07
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.94
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.63
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.60
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.51
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.58
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.35
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.64
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.64
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.76
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.45
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.43
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.99
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.86
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.03
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.07
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.32
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.78
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.46
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.55
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.11
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.59
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.99
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.01
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.80
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.48
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.39
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
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.45
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.50
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.70
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.26
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.21
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.93
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.48
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.77
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.23
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.70
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.21
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.10
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.95
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.66
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.23
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.41
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.68
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.62
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.69
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.00
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.70
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.53
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.75
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.22
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.37
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.24
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.24
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.67
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.35
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.68
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.47
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.05
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.27
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.70
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.66
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.69
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.36
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.48
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.11
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.02
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.10
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.94
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.60
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.11
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.86
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.59
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.91
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.56
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.13
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.56
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.47
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.73
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.62
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.37
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.21
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.47
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.59
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.41
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.77
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.89
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.86
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.65
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.62
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.30
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	13.21
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	12.76
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.43
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.55
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.73
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.97
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.09
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.