Gene detail

Detailed information of OS493_024359-T1 in Lophelia pertusa

Genomic Location: scaffold_113:312857...314585
NR annotation: KAJ7357551.1, Cinnamyl-alcohol dehydrogenase Flavonol reductase/cinnamoyl-CoA reductase, 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
Q43472	Glycine-rich RNA-binding protein blt801 OS=Hordeum vulgare OX=4513 GN=blt801 PE=1 SV=1
Q03250	Glycine-rich RNA-binding protein 7 OS=Arabidopsis thaliana OX=3702 GN=RBG7 PE=1 SV=1
A0A0A0LLY1	Small RNA binding protein 1 OS=Cucumis sativus OX=3659 GN=SRBP1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000852 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00076 all species →	RRM_1	RNA recognition motif	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000504 all species →	Domain	RNA recognition motif domain	Interproscan
IPR012677 all species →	Homologous_superfamily	Nucleotide-binding alpha-beta plait domain superfamily	Interproscan
IPR035979 all species →	Homologous_superfamily	RNA-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15241 all species →	TRANSFORMER-2-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid 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_024359-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_024359-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

2,353.5Max TPM

985.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	806.76	1,132.26
polyp at pH7 6	18	18	1,036.62	1,704.87
coral polyp · control treatment	16	16	966.14	1,800.73
coral polyp · oil and dispersant treatment	16	16	1,099.52	1,944.48
coral polyp · oil treatment	16	16	889.14	1,366.29
coral polyp · dispersant treatment	16	16	1,027.47	2,353.54
Polyp	10	10	1,148.56	2,034.83

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	-	1,132.26
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,036.08
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,021.55
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	998.67
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	960.02
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	953.14
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	950.32
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	928.84
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	837.94
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	830.03
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	798.39
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	777.56
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	630.39
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	622.36
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	589.68
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	561.92
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	457.95
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	434.64
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,704.87
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,699.99
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,163.82
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,147.98
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,143.97
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,104.12
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,088.70
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,079.34
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,024.85
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,018.53
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,011.30
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	986.34
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	823.65
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	807.11
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	750.43
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	742.50
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	691.85
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	669.82
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,800.73
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,497.84
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,292.02
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,172.76
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,097.27
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,086.07
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	980.62
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	943.70
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	840.66
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	819.61
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	793.67
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	658.20
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	642.45
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	640.30
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	615.57
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	576.72
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,944.48
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,480.04
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,308.80
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,261.29
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,170.88
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,160.47
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,083.54
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,066.04
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,052.68
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,008.41
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,004.39
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	907.60
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	856.81
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	823.80
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	812.68
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	650.48
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,366.29
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,253.43
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,126.82
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,044.36
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,025.60
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,019.57
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	991.96
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	971.83
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	969.64
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	828.42
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	795.24
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	793.40
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	590.38
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	573.07
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	545.86
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	330.39
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,353.54
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,536.53
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,292.78
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,177.41
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,118.77
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,073.05
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,033.75
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	972.19
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	900.91
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	869.38
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	825.70
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	797.90
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	719.51
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	715.31
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	634.12
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	418.61
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2,034.83
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1,821.51
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1,335.98
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1,309.13
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1,247.53
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1,245.22
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	799.72
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	661.06
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	592.85
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	437.80

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.