Gene detail

Detailed information of OS493_001163-T1 in Lophelia pertusa

Genomic Location: scaffold_2:5886440...5895920
NR annotation: KAJ7387817.1, mediator complex subunit Med15 [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
Q7ZVN7	Mediator of RNA polymerase II transcription subunit 15 OS=Danio rerio OX=7955 GN=med15 PE=2 SV=1
Q96RN5	Mediator of RNA polymerase II transcription subunit 15 OS=Homo sapiens OX=9606 GN=MED15 PE=1 SV=2
Q6NS15	Mediator of RNA polymerase II transcription subunit 15 OS=Xenopus laevis OX=8355 GN=med15 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002801 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09606 all species →	Med15	ARC105/Med15 mediator subunit N-terminal KIX domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019087 all species →	Domain	Mediator of RNA polymerase II transcription subunit 15, N-terminal	Interproscan
IPR036529 all species →	Homologous_superfamily	Coactivator CBP, KIX domain superfamily	Interproscan

PANTHER

No PANTHER signature was detected for OS493_001163-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

GO term	Category	Description	Source
GO:0003712 all species →	Molecular Function	transcription coregulator activity	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	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_001163-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_001163-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

133.8Max TPM

25.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.41	18.30
polyp at pH7 6	18	18	8.85	13.88
coral polyp · control treatment	16	16	31.63	87.00
coral polyp · oil and dispersant treatment	16	16	55.46	98.62
coral polyp · oil treatment	16	16	23.92	40.81
coral polyp · dispersant treatment	16	16	39.19	133.80
Polyp	10	9	7.42	12.11

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.30
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.90
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.60
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.64
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.48
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.24
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.69
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.43
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.38
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.68
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.01
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.79
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.51
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.56
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.41
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.36
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.95
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.48
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.88
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.73
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.47
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.29
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.95
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.94
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.92
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.79
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.17
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.72
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.06
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.61
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.43
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.55
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.68
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.70
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.30
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.16
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	87.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.95
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.22
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.77
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.28
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.83
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.51
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.50
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.18
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.98
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.36
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.24
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.05
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.19
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.37
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.65
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	98.62
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	98.22
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	93.79
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	78.36
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	76.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	71.19
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.04
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.65
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.80
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.79
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.23
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.68
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.85
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.57
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.53
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.99
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.81
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.83
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.10
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.83
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.47
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.33
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.34
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.90
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.11
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.36
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.66
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.75
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.49
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.02
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.66
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.09
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	133.80
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.29
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.41
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.90
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.55
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.84
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.38
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.27
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.63
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.24
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.65
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.32
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.20
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.70
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.61
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.22
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	12.11
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	11.76
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	11.18
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.26
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.71
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.19
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.38
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.98
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.65
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.