Gene detail

Detailed information of OS493_028036-T1 in Lophelia pertusa

Genomic Location: scaffold_157:550029...553826
NR annotation: KAJ7389981.1, 60S ribosomal protein L23 [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
Q3T057	Large ribosomal subunit protein uL14 OS=Bos taurus OX=9913 GN=RPL23 PE=2 SV=2
P62829	Large ribosomal subunit protein uL14 OS=Homo sapiens OX=9606 GN=RPL23 PE=1 SV=1
Q90YU5	Large ribosomal subunit protein uL14 OS=Ictalurus punctatus OX=7998 GN=rpl23 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007610 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00238 all species →	Ribosomal_L14	Ribosomal protein L14p/L23e	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036853 all species →	Homologous_superfamily	Large ribosomal subunit protein uL14 superfamily	Interproscan
IPR000218 all species →	Family	Large ribosomal subunit protein uL14	Interproscan
IPR019972 all species →	Conserved_site	Large ribosomal subunit protein uL14, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11761 all species →	50S/60S RIBOSOMAL PROTEIN L14/L23	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0005840 all species →	Cellular Component	ribosome	Interproscan
GO:0006412 all species →	Biological Process	translation	Interproscan
GO:0022625 all species →	Cellular Component	cytosolic large ribosomal subunit	Interproscan
GO:0070180 all species →	Molecular Function	large ribosomal subunit rRNA 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K02894	RP-L23e, RPL23; large subunit ribosomal protein L23e	-	Ribosome	ko03011	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_028036-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

11,030.7Max TPM

5,318.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	6,519.77	7,532.79
polyp at pH7 6	18	18	6,428.70	8,872.65
coral polyp · control treatment	16	16	4,172.15	8,171.46
coral polyp · oil and dispersant treatment	16	16	3,661.43	5,958.21
coral polyp · oil treatment	16	16	4,850.14	8,641.90
coral polyp · dispersant treatment	16	16	3,764.39	11,030.68
Polyp	10	10	8,881.91	10,931.62

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	-	7,532.79
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,515.21
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,484.95
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,459.04
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,120.78
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,051.14
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,896.38
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,884.65
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,817.81
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,777.19
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,496.01
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,448.50
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,898.28
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,728.04
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,720.23
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,332.89
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,102.83
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,089.10
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8,872.65
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8,714.44
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7,551.08
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7,550.72
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7,177.70
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7,112.17
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7,101.69
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,917.27
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,389.92
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,299.81
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,002.72
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,918.41
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,612.62
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,450.30
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,272.70
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,254.20
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,305.07
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,213.11
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8,171.46
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,787.79
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,622.46
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,221.87
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,110.95
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,998.00
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,264.53
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,731.32
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,617.98
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,559.83
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,133.01
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,110.12
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,908.65
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,887.69
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,569.10
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,059.62
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5,958.21
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4,884.56
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4,466.94
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4,111.34
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,826.40
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,823.47
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,753.61
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,740.40
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,396.98
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,351.86
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,244.77
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,194.61
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,978.06
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,877.72
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,573.70
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,400.23
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8,641.90
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7,858.11
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,742.63
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,552.26
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,487.49
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,602.01
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,460.83
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,358.55
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,313.08
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,175.32
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,164.13
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,125.18
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,124.21
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,843.16
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,375.24
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,778.20
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11,030.68
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9,248.02
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,819.52
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,584.88
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,544.37
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,489.97
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,229.05
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,122.86
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,817.43
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,741.70
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,737.66
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,568.71
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,332.52
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,133.38
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,940.58
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,889.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	10,931.62
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	10,253.11
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	9,986.36
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9,832.56
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	9,563.81
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8,558.16
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8,343.01
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7,906.15
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7,126.47
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6,317.81

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.