Gene detail

Detailed information of OS493_006588-T1 in Lophelia pertusa

Genomic Location: scaffold_13:4451963...4455197
NR annotation: KAJ7393602.1, Mediator of RNA polymerase II transcription subunit 18 [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
Q7T3H7	Mediator of RNA polymerase II transcription subunit 18 OS=Danio rerio OX=7955 GN=med18 PE=2 SV=1
Q9BUE0	Mediator of RNA polymerase II transcription subunit 18 OS=Homo sapiens OX=9606 GN=MED18 PE=1 SV=1
Q0VCD4	Mediator of RNA polymerase II transcription subunit 18 OS=Bos taurus OX=9913 GN=MED18 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006492 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09637 all species →	Med18	Med18 protein	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019095 all species →	Family	Mediator complex, subunit Med18	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13321 all species →	MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION, SUBUNIT 18	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003712 all species →	Molecular Function	transcription coregulator activity	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0006369 all species →	Biological Process	termination of RNA polymerase II transcription	Interproscan
GO:0016592 all species →	Cellular Component	mediator complex	Interproscan
GO:0070847 all species →	Cellular Component	core mediator 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
K15135	MED18; mediator of RNA polymerase II transcription subunit 18	-	Transcription machinery	ko03021	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_006588-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

109TPM > 0

7Conditions

37.3Max TPM

11.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.76	17.27
polyp at pH7 6	18	17	9.49	14.85
coral polyp · control treatment	16	16	15.01	26.23
coral polyp · oil and dispersant treatment	16	16	12.04	37.27
coral polyp · oil treatment	16	16	15.21	20.77
coral polyp · dispersant treatment	16	16	6.97	12.35
Polyp	10	10	14.89	20.71

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.27
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.62
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.32
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.09
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.57
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.31
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.37
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.27
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.64
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.74
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.69
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.57
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.32
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.45
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.96
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.78
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.64
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.10
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.85
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.94
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.05
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.73
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.69
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.11
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.29
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.48
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.78
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.64
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.58
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.45
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.39
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.59
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.22
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.66
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.35
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.23
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.75
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.49
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.65
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.40
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.30
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.58
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.31
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.57
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.45
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.91
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.88
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.75
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.35
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.08
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.48
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.27
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.19
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.48
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.43
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.36
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.33
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.42
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.24
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.87
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.05
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.28
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.81
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.49
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.16
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.27
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.95
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.77
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.13
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.45
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.35
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.12
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.43
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.00
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.81
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.67
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.38
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.48
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.41
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.74
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.32
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.70
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.67
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.35
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.98
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.74
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.38
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.29
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.00
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.00
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.74
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.73
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.73
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.06
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.43
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.03
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.61
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.53
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.85
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	20.71
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	20.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	18.50
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	17.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	16.28
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	14.06
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.56
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	10.44
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.40
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.95

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.