Gene detail

Detailed information of OS493_012795-T1 in Lophelia pertusa

Genomic Location: scaffold_33:3173073...3178493
NR annotation: KAJ7380033.1, hypothetical protein OS493_012795 [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
P78992	Pyruvate carboxylase OS=Komagataella pastoris OX=4922 GN=PYC1 PE=3 SV=1
O17732	Pyruvate carboxylase 1 OS=Caenorhabditis elegans OX=6239 GN=pyc-1 PE=1 SV=1
P52873	Pyruvate carboxylase, mitochondrial OS=Rattus norvegicus OX=10116 GN=Pc PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0086413 (this species only)

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
IPR005930 all species →	Family	Pyruvate carboxylase	Interproscan
IPR005479 all species →	Domain	Carbamoyl-phosphate synthetase large subunit-like, ATP-binding domain	Interproscan
IPR013815 all species →	Homologous_superfamily	ATP-grasp fold, subdomain 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43778 all species →	PYRUVATE CARBOXYLASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004736 all species →	Molecular Function	pyruvate carboxylase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	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

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_012795-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_012795-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

99TPM > 0

7Conditions

13.1Max TPM

5.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	3.73	7.31
polyp at pH7 6	18	15	3.69	9.08
coral polyp · control treatment	16	16	7.50	13.07
coral polyp · oil and dispersant treatment	16	14	4.99	8.07
coral polyp · oil treatment	16	16	5.63	10.00
coral polyp · dispersant treatment	16	15	6.84	10.41
Polyp	10	7	1.64	3.67

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.31
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.05
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.93
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.84
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.80
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.53
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.51
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.44
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.21
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.20
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.71
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.46
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.19
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.95
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.74
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.29
SRR11359494	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
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.08
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.39
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.18
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.74
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.46
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.49
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.19
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.74
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.54
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.29
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.17
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.89
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.25
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.85
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.12
SRR11359513	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
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.07
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.17
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.14
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.11
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.20
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.60
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.41
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.35
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.31
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.12
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.26
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.08
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.67
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.40
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.28
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.78
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.07
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.45
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.36
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.86
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.67
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.29
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.78
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.44
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.17
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.66
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.38
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.31
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.01
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.31
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.75
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.78
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.84
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.65
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.78
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.60
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.78
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.67
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.60
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.49
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.64
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.12
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.52
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.18
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.62
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.41
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.33
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.27
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.15
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.13
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.12
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.05
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.67
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.55
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.39
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.01
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.39
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.15
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.83
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.93
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.67
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.06
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.90
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.45
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.11
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.63
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.60
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
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.