Gene detail

Detailed information of OS493_002822-T1 in Lophelia pertusa

Genomic Location: scaffold_6:869790...871573
NR annotation: KAJ7340096.1, ribosomal protein S29, S14 [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
Q4PM47	Small ribosomal subunit protein uS14 OS=Ixodes scapularis OX=6945 GN=RpS29 PE=3 SV=1
Q6F473	Small ribosomal subunit protein uS14 OS=Plutella xylostella OX=51655 GN=RpS29 PE=3 SV=1
Q4LAY1	Small ribosomal subunit protein uS14 OS=Scarabaeus laticollis OX=292456 GN=RpS29 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0015965 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00253 all species →	Ribosomal_S14	Ribosomal protein S14p/S29e	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR043140 all species →	Homologous_superfamily	Small ribosomal subunit protein uS14 superfamily	Interproscan
IPR039744 all species →	Family	Small ribosomal subunit protein uS14, eukaryotes/archaea	Interproscan
IPR001209 all species →	Family	Small ribosomal subunit protein uS14	Interproscan
IPR018271 all species →	Conserved_site	Small ribosomal subunit protein uS14, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12010 all species →	40S RIBOSOMAL PROTEIN S29	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0022627 all species →	Cellular Component	cytosolic small ribosomal subunit	Interproscan
GO:0005840 all species →	Cellular Component	ribosome	Interproscan
GO:0006412 all species →	Biological Process	translation	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_002822-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_002822-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

97TPM > 0

7Conditions

2,975.0Max TPM

1,189.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	13	1,837.19	2,975.02
polyp at pH7 6	18	11	1,436.87	2,737.55
coral polyp · control treatment	16	16	783.13	1,159.40
coral polyp · oil and dispersant treatment	16	16	760.24	1,235.88
coral polyp · oil treatment	16	16	989.50	1,674.04
coral polyp · dispersant treatment	16	16	644.26	1,124.77
Polyp	10	9	2,105.30	2,622.08

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	-	2,975.02
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,961.57
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,919.87
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,916.39
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,638.69
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,609.76
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,588.47
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,447.94
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,400.06
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,312.69
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,265.97
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,028.66
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,004.34
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,737.55
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,588.03
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,527.90
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,425.71
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,378.12
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,356.32
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,259.91
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,179.75
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,175.71
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,133.69
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,101.05
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,159.40
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,158.92
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,097.90
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,045.67
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,005.36
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	988.51
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	803.03
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	760.06
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	750.58
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	684.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	666.08
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	593.64
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	555.84
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	517.69
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	419.50
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	323.91
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,235.88
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,029.53
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,007.34
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	948.29
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	946.95
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	812.54
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	805.63
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	804.47
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	738.79
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	721.86
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	693.33
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	618.54
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	563.20
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	561.38
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	361.16
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	315.03
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,674.04
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,318.56
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,218.60
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,204.71
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,143.04
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,120.97
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,025.78
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	987.50
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	949.09
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	907.15
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	888.60
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	886.13
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	689.61
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	688.66
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	658.92
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	470.56
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,124.77
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	957.93
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	928.02
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	807.92
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	750.71
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	678.01
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	632.44
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	623.12
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	584.55
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	544.91
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	524.79
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	497.37
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	473.85
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	434.75
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	414.33
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	330.69
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2,622.08
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2,498.75
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2,451.18
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2,387.07
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2,367.12
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2,295.11
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2,285.65
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2,274.05
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1,872.01
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.