Gene detail

Detailed information of OS493_011967-T1 in Lophelia pertusa

Genomic Location: scaffold_31:266406...272818
NR annotation: KAJ7392310.1, structural constituent of ribosome [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
P52809	Large ribosomal subunit protein eL42 OS=Cyberlindnera jadinii OX=4903 GN=RPL44 PE=3 SV=2
Q6BLK0	Large ribosomal subunit protein eL42 OS=Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / BCRC 21394 / JCM 1990 / NBRC 0083 / IGC 2968) OX=284592 GN=RPL44 PE=3 SV=3
Q6CFS7	Large ribosomal subunit protein eL42 OS=Yarrowia lipolytica (strain CLIB 122 / E 150) OX=284591 GN=RPL44 PE=3 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007639 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00935 all species →	Ribosomal_L44	Ribosomal protein L44	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR053708 all species →	Homologous_superfamily	Eukaryotic Ribosomal Large Subunit eL42	Interproscan
IPR000552 all species →	Family	Large ribosomal subunit protein eL42	Interproscan
IPR011332 all species →	Homologous_superfamily	Zinc-binding ribosomal protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10369 all species →	60S RIBOSOMAL PROTEIN L36A/L44	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

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_011967-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_011967-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

7,950.3Max TPM

2,401.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3,204.40	4,319.14
polyp at pH7 6	18	18	3,204.01	4,701.77
coral polyp · control treatment	16	16	1,613.28	3,411.23
coral polyp · oil and dispersant treatment	16	16	1,493.16	2,652.11
coral polyp · oil treatment	16	16	2,060.42	4,323.32
coral polyp · dispersant treatment	16	16	1,752.97	7,950.30
Polyp	10	10	3,806.05	5,490.53

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	-	4,319.14
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,298.84
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,769.21
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,664.73
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,554.30
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,535.66
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,455.57
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,425.82
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,342.75
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,303.86
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,988.91
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,946.77
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,897.39
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,895.18
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,414.93
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,402.92
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,234.18
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,228.94
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,701.77
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,605.30
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,038.75
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,024.40
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,753.28
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,662.73
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,527.91
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,482.71
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,920.85
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,892.45
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,874.91
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,860.49
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,662.67
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,656.54
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,536.22
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,529.30
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,996.94
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,945.01
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,411.23
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,382.75
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,254.13
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,234.77
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,873.95
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,805.34
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,709.19
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,678.38
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,425.82
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,294.46
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,260.63
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,132.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	990.63
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	839.73
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	774.99
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	744.45
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,652.11
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,051.29
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,896.84
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,852.91
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,646.03
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,631.84
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,577.97
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,553.54
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,493.25
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,353.38
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,269.52
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,236.41
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,081.37
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,050.90
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	787.05
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	756.17
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,323.32
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,767.46
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,550.47
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,419.01
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,259.95
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,045.38
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,965.97
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,802.68
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,744.04
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,714.15
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,707.79
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,567.07
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,440.24
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,314.09
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,297.53
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,047.53
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7,950.30
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4,820.55
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,607.64
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,355.13
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,351.08
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,320.67
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,173.03
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,166.90
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,139.20
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,069.42
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,057.78
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,006.94
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	857.46
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	747.07
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	716.73
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	707.58
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5,490.53
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5,404.48
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4,658.71
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4,102.65
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4,078.94
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3,162.16
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3,121.51
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2,894.41
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2,632.47
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2,514.62

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.