Gene detail

Detailed information of OS493_028798-T1 in Lophelia pertusa

Genomic Location: scaffold_169:280875...287571
NR annotation: KAJ7389829.1, Paf1 complex component [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
Q6NYV9	RNA polymerase-associated protein LEO1 OS=Danio rerio OX=7955 GN=leo1 PE=1 SV=1
Q8WVC0	RNA polymerase-associated protein LEO1 OS=Homo sapiens OX=9606 GN=LEO1 PE=1 SV=1
Q5XJE5	RNA polymerase-associated protein LEO1 OS=Mus musculus OX=10090 GN=Leo1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007744 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04004 all species →	Leo1	Leo1-like protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007149 all species →	Family	Leo1-like protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23146 all species →	LEO1 PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006368 all species →	Biological Process	transcription elongation by RNA polymerase II	Interproscan
GO:0016593 all species →	Cellular Component	Cdc73/Paf1 complex	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0032968 all species →	Biological Process	positive regulation of transcription elongation by RNA polymerase II	Interproscan
GO:1990269 all species →	Molecular Function	RNA polymerase II C-terminal domain phosphoserine binding	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
K15177	LEO1; RNA polymerase-associated protein LEO1	-	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_028798-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

65.5Max TPM

31.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	28.34	46.63
polyp at pH7 6	18	18	33.29	65.53
coral polyp · control treatment	16	16	39.69	54.08
coral polyp · oil and dispersant treatment	16	16	34.33	40.42
coral polyp · oil treatment	16	16	35.48	44.21
coral polyp · dispersant treatment	16	16	20.35	31.85
Polyp	10	10	31.21	42.28

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.63
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.76
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.27
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.93
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.77
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.31
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.70
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.53
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.51
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.44
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.41
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.50
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.44
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.71
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.58
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.91
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.35
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.33
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.53
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.50
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.68
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.61
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.87
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.70
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.69
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.34
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.06
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.02
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.28
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.74
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.52
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.08
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.48
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.61
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.86
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.61
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.08
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.43
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.79
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.63
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.60
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.61
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.87
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.74
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.23
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.00
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.69
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.81
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.54
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.36
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.76
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.93
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.42
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.19
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.74
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.65
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.78
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.76
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.62
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.56
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.40
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.78
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.41
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.96
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.74
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.26
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.46
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.47
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.21
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.15
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.46
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.45
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.25
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.92
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.15
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.61
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.70
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.02
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.27
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.11
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.25
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.95
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.85
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.39
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.85
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.82
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.81
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.42
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.08
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.25
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.57
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.92
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.61
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.57
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.87
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.73
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.66
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.65
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.41
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.33
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	42.28
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	41.57
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	37.74
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	35.65
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	35.64
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	26.53
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	25.08
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	23.38
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	23.12
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	21.07

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.