Gene detail

Detailed information of OS493_000237-T1 in Lophelia pertusa

Genomic Location: scaffold_1:2669409...2669729
NR annotation: KAJ7394428.1, hypothetical protein OS493_000237 [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
A3MKY3	Putative 4-hydroxy-4-methyl-2-oxoglutarate aldolase OS=Burkholderia mallei (strain NCTC 10247) OX=320389 GN=BMA10247_1368 PE=3 SV=1
A2SB35	Putative 4-hydroxy-4-methyl-2-oxoglutarate aldolase OS=Burkholderia mallei (strain NCTC 10229) OX=412022 GN=BMA10229_A3218 PE=3 SV=1
Q62J86	Putative 4-hydroxy-4-methyl-2-oxoglutarate aldolase OS=Burkholderia mallei (strain ATCC 23344) OX=243160 GN=BMA1593 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0087328 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03737 all species →	RraA-like	Aldolase/RraA	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005493 all species →	Family	Ribonuclease E inhibitor RraA/RraA-like protein	Interproscan
IPR036704 all species →	Homologous_superfamily	Ribonuclease E inhibitor RraA/RraA-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR33254 all species →	4-HYDROXY-4-METHYL-2-OXOGLUTARATE ALDOLASE 3-RELATED	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_000237-T1. This gene does have a gene model — the search simply returned no hit.

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_000237-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_000237-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

27.2Max TPM

4.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.20	27.22
polyp at pH7 6	18	17	6.65	20.81
coral polyp · control treatment	16	16	3.16	9.96
coral polyp · oil and dispersant treatment	16	14	3.16	10.29
coral polyp · oil treatment	16	16	2.46	8.13
coral polyp · dispersant treatment	16	16	3.26	10.47
Polyp	10	9	7.34	20.35

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.22
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.36
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.97
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.74
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.46
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.78
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.11
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.93
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.95
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.68
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.34
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.61
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.51
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.19
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.76
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.35
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.16
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.47
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.81
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.33
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.81
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.19
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.67
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.21
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.56
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.83
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.22
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.04
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.95
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.93
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.78
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.06
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.63
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.86
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.81
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.96
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.63
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.82
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.60
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.24
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.03
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.85
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.45
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.34
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.98
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.69
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.30
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.30
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.23
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.12
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.08
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.29
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.02
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.49
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.92
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.24
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.30
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.19
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.03
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.90
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.01
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.51
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.20
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.11
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.27
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.13
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.61
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.87
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.50
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.70
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.30
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.11
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.21
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.05
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.99
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.73
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.66
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.64
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.62
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.16
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.06
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.47
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.39
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.05
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.61
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.62
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.25
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.19
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.20
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.85
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.74
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.70
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.37
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.11
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.08
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.76
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.73
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	20.35
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	17.63
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.20
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.06
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.20
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.32
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.14
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.64
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.86
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.