Gene detail

Detailed information of OS493_009159-T1 in Lophelia pertusa

Genomic Location: scaffold_22:570383...571276
NR annotation: KAJ7373837.1, General transcription factor IIE subunit 1 [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
P29083	General transcription factor IIE subunit 1 OS=Homo sapiens OX=9606 GN=GTF2E1 PE=1 SV=2
Q5R8H5	General transcription factor IIE subunit 1 OS=Pongo abelii OX=9601 GN=GTF2E1 PE=2 SV=1
A6QLI8	General transcription factor IIE subunit 1 OS=Bos taurus OX=9913 GN=GTF2E1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009102 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF11521 all species →	TFIIE-A_C	C-terminal general transcription factor TFIIE alpha	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR039997 all species →	Family	Transcription factor E	Interproscan
IPR021600 all species →	Domain	Transcription factor TFIIE alpha subunit, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13097 all species →	TRANSCRIPTION INITIATION FACTOR IIE, ALPHA SUBUNIT	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0001113 all species →	Biological Process	transcription open complex formation at RNA polymerase II promoter	Interproscan
GO:0005673 all species →	Cellular Component	transcription factor TFIIE 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

No KEGG orthology assignment for OS493_009159-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_009159-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

62.7Max TPM

26.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	24.96	34.90
polyp at pH7 6	18	18	22.94	29.20
coral polyp · control treatment	16	16	32.12	62.66
coral polyp · oil and dispersant treatment	16	16	30.55	39.60
coral polyp · oil treatment	16	16	32.40	47.72
coral polyp · dispersant treatment	16	16	15.31	24.92
Polyp	10	10	26.42	34.31

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.90
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.69
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.78
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.62
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.66
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.36
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.63
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.63
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.88
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.55
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.89
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.14
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.95
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.56
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.09
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.92
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.32
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.80
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.20
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.21
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.95
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.15
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.92
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.71
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.70
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.72
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.71
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.35
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.11
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.30
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.14
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.46
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.16
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.99
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.74
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.37
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.66
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.32
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.36
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.83
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.62
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.45
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.46
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.77
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.39
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.85
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.11
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.52
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.01
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.93
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.26
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.44
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.60
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.77
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.81
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.84
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.10
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.60
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.51
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.13
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.49
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.50
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.41
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.90
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.89
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.21
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.98
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.06
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.72
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.57
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.23
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.45
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.45
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.40
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.33
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.85
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.96
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.73
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.59
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.14
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.62
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.57
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.79
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.92
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.77
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.66
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.88
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.65
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.94
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.31
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.33
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.72
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.75
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.32
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.97
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.92
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.94
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.78
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.07
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	34.31
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	34.28
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	31.45
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	28.73
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	28.36
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	25.02
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	24.84
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	23.05
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	22.23
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.93

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.