Gene detail

Detailed information of OS493_005836-T1 in Lophelia pertusa

Genomic Location: scaffold_12:1550537...1556205
NR annotation: KAJ7339438.1, 60S ribosomal protein L7A [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
O57592	Large ribosomal subunit protein eL8 OS=Takifugu rubripes OX=31033 GN=rpl7a PE=3 SV=3
P32429	Large ribosomal subunit protein eL8 OS=Gallus gallus OX=9031 GN=RPL7A PE=1 SV=2
Q90YW2	Large ribosomal subunit protein eL8 OS=Ictalurus punctatus OX=7998 GN=rpl7a PE=2 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007233 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01248 all species →	Ribosomal_L7Ae	Ribosomal protein L7Ae/L30e/S12e/Gadd45 family	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR018492 all species →	Family	Ribosomal protein eL8/Nhp2 family	Interproscan
IPR029064 all species →	Homologous_superfamily	Ribosomal protein eL30-like superfamily	Interproscan
IPR001921 all species →	Family	Large ribosomal subunit protein eL8	Interproscan
IPR050257 all species →	Family	Eukaryotic ribosomal RNA-processing and assembly protein	Interproscan
IPR004037 all species →	Conserved_site	Large ribosomal subunit protein eL8-like, conserved site	Interproscan
IPR004038 all species →	Domain	Ribosomal protein eL8/eL30/eS12/Gadd45	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23105 all species →	RIBOSOMAL PROTEIN L7AE FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000470 all species →	Biological Process	maturation of LSU-rRNA	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0022625 all species →	Cellular Component	cytosolic large ribosomal subunit	Interproscan
GO:0042254 all species →	Biological Process	ribosome biogenesis	Interproscan
GO:1990904 all species →	Cellular Component	ribonucleoprotein complex	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
K02936	RP-L7Ae, RPL7A; large subunit ribosomal protein L7Ae	-	Ribosome biogenesis	ko03009	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_005836-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

5,871.7Max TPM

3,535.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4,212.83	5,871.71
polyp at pH7 6	18	18	3,945.40	5,273.82
coral polyp · control treatment	16	16	3,246.76	5,519.97
coral polyp · oil and dispersant treatment	16	16	2,843.12	4,582.90
coral polyp · oil treatment	16	16	3,511.76	5,308.74
coral polyp · dispersant treatment	16	16	2,571.31	5,838.55
Polyp	10	10	4,723.91	5,639.15

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,871.71
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,820.99
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,663.65
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,659.96
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,463.83
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,424.03
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,413.33
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,365.18
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,275.92
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,245.44
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,054.81
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,043.02
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,616.36
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,604.20
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,583.66
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,553.34
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,096.52
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,075.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,273.82
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,248.46
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,331.87
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,231.02
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,210.28
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,187.90
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,814.55
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,793.74
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,783.18
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,775.63
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,748.22
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,710.05
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,701.62
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,700.36
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,532.05
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,516.15
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,232.34
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,226.04
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,519.97
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,134.16
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,114.27
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,004.12
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,936.17
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,927.35
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,591.92
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,204.61
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,822.20
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,808.42
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,768.10
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,556.65
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,497.21
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,224.15
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,198.06
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,640.76
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4,582.90
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,689.27
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,274.73
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,094.99
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,083.08
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,892.25
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,747.66
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,639.31
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,629.53
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,587.20
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,530.02
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,479.40
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,380.11
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,311.70
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,306.29
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,261.55
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,308.74
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,608.93
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,545.57
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,906.06
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,740.65
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,467.13
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,450.35
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,412.90
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,389.02
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,321.01
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,267.21
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,989.34
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,966.32
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,702.29
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,598.06
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,514.56
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5,838.55
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5,514.52
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,768.34
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,760.07
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,661.89
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,347.52
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,297.38
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,231.81
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,143.46
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,013.98
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,011.85
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,881.88
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,847.54
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,729.84
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,672.09
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,420.22
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5,639.15
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5,053.67
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4,975.74
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4,889.70
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4,837.56
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4,618.36
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4,490.73
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4,347.73
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4,259.72
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4,126.77

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.