Gene detail

Detailed information of OS493_010094-T1 in Lophelia pertusa

Genomic Location: scaffold_24:2784129...2785808
NR annotation: KAJ7337237.1, hypothetical protein OS493_010094 [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
B6IPN3	Putative 4-hydroxy-4-methyl-2-oxoglutarate aldolase OS=Rhodospirillum centenum (strain ATCC 51521 / SW) OX=414684 GN=RC1_2349 PE=3 SV=1
A4XU32	Putative 4-hydroxy-4-methyl-2-oxoglutarate aldolase OS=Ectopseudomonas mendocina (strain ymp) OX=399739 GN=Pmen_2087 PE=3 SV=1
Q5P203	Putative 4-hydroxy-4-methyl-2-oxoglutarate aldolase OS=Aromatoleum aromaticum (strain DSM 19018 / LMG 30748 / EbN1) OX=76114 GN=AZOSEA25360 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008821 (this species only) · gene tree & orthology

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
IPR010203 all species →	Family	Regulator of ribonuclease activity A	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0008428 all species →	Molecular Function	ribonuclease inhibitor activity	Interproscan
GO:0051252 all species →	Biological Process	regulation of RNA metabolic process	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K02553	rraA, menG; regulator of ribonuclease activity A	-	Messenger RNA biogenesis	ko03019	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_010094-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

66.8Max TPM

29.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	31.78	56.90
polyp at pH7 6	18	18	39.31	54.42
coral polyp · control treatment	16	16	32.47	53.08
coral polyp · oil and dispersant treatment	16	16	18.87	37.54
coral polyp · oil treatment	16	16	28.71	59.93
coral polyp · dispersant treatment	16	16	18.86	38.93
Polyp	10	10	36.61	66.80

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.90
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	55.41
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.60
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.58
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.44
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.07
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.92
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.19
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.82
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.08
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.85
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.31
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.87
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.85
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.80
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.61
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.24
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.49
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.42
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.82
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.54
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.75
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.94
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.09
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.45
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.79
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.79
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.51
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.04
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.14
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.95
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.26
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.65
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.62
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.58
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.18
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.08
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.29
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.80
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.29
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.89
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.38
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.78
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.50
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.99
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.60
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.27
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.94
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.71
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.46
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.38
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.10
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.54
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.11
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.70
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.46
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.06
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.42
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.88
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.40
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.89
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.32
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.71
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.88
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.31
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.88
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.75
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.63
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.93
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.39
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.09
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.84
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.37
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.67
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.05
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.64
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.20
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.26
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.86
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.92
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.61
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.01
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.07
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.53
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.93
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.25
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.14
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.75
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.70
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.77
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.29
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.94
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.23
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.36
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.77
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.25
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.02
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.09
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.09
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.13
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	66.80
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	64.93
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	48.65
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	38.77
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	32.21
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	31.91
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	30.61
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	20.18
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	16.62
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	15.46

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.