Gene detail

Detailed information of OS493_004175-T1 in Lophelia pertusa

Genomic Location: scaffold_8:3066758...3091091
NR annotation: KAJ7387205.1, Mediator of RNA polymerase II transcription subunit 13-like [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
Q71F56	Mediator of RNA polymerase II transcription subunit 13-like OS=Homo sapiens OX=9606 GN=MED13L PE=1 SV=1
Q6JPI3	Mediator of RNA polymerase II transcription subunit 13-like OS=Mus musculus OX=10090 GN=Med13l PE=1 SV=2
Q5SWW4	Mediator of RNA polymerase II transcription subunit 13 OS=Mus musculus OX=10090 GN=Med13 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003746 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_004175-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR051139 all species →	Family	Mediator complex subunit 13	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR48249 all species →	MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 13	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003713 all species →	Molecular Function	transcription coactivator activity	Interproscan
GO:0016592 all species →	Cellular Component	mediator complex	Interproscan
GO:0045944 all species →	Biological Process	positive regulation of transcription by RNA polymerase II	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_004175-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_004175-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

105TPM > 0

7Conditions

19.4Max TPM

7.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	5.92	14.32
polyp at pH7 6	18	15	5.76	11.71
coral polyp · control treatment	16	16	9.24	18.65
coral polyp · oil and dispersant treatment	16	16	9.51	15.81
coral polyp · oil treatment	16	16	7.50	11.65
coral polyp · dispersant treatment	16	16	11.59	19.43
Polyp	10	9	1.32	2.80

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.32
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.99
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.50
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.21
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.14
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.89
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.84
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.81
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.76
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.52
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.43
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.22
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.08
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.23
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.82
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.86
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.71
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.09
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.67
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.99
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.83
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.48
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.17
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.14
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.25
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.99
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.04
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.65
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.09
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.34
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.21
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
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.65
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.16
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.85
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.93
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.89
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.76
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.18
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.58
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.57
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.11
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.27
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.27
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.33
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.75
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.51
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.06
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.81
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.36
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.78
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.48
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.46
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.75
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.18
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.47
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.24
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.66
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.07
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.04
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.43
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.76
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.59
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.01
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.65
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.62
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.22
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.79
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.10
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.88
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.67
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.39
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.15
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.04
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.48
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.20
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.45
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.95
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.92
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.49
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.43
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.52
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.49
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.35
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.76
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.72
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.19
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.10
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.43
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.26
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.43
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.90
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.02
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.30
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.28
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.30
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.80
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.95
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.88
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.61
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.57
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.42
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.04
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.46
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.45
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.