Gene detail

Detailed information of OS493_019127-T1 in Lophelia pertusa

Genomic Location: scaffold_65:1184414...1228813
NR annotation: KAJ7360036.1, General transcription factor 3C polypeptide 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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001719 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_019127-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR044210 all species →	Family	Transcription facto Tfc3-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15180 all species →	GENERAL TRANSCRIPTION FACTOR 3C POLYPEPTIDE 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000127 all species →	Cellular Component	transcription factor TFIIIC complex	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0006384 all species →	Biological Process	transcription initiation at RNA polymerase III promoter	Interproscan
GO:0042791 all species →	Biological Process	5S class rRNA transcription by RNA polymerase III	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_019127-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_019127-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

40.3Max TPM

15.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	15.40	20.05
polyp at pH7 6	18	18	15.36	25.01
coral polyp · control treatment	16	16	15.08	40.26
coral polyp · oil and dispersant treatment	16	16	14.40	26.44
coral polyp · oil treatment	16	16	14.88	23.65
coral polyp · dispersant treatment	16	16	13.64	19.30
Polyp	10	10	19.04	28.26

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.05
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.09
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.30
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.67
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.66
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.23
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.78
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.75
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.70
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.63
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.34
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.83
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.22
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.12
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.88
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.64
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.74
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.54
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.01
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.87
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.81
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.18
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.96
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.71
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.39
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.88
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.52
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.27
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.01
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.43
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.76
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.12
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.53
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.86
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.78
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.34
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.26
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.13
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.95
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.15
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.41
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.58
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.32
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.68
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.52
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.49
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.24
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.72
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.96
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.93
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.10
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.91
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.44
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.52
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.02
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.91
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.59
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.46
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.37
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.31
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.95
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.28
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.19
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.81
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.77
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.65
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.29
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.76
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.65
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.97
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.48
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.91
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.64
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.50
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.15
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.49
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.25
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.91
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.46
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.41
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.28
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.07
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.57
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.33
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.30
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.89
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.74
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.05
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.13
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.89
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.57
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.57
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.71
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.49
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.53
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.51
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.45
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.73
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.45
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.15
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	28.26
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	27.27
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	21.63
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	20.78
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	19.71
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	19.06
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	17.57
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	14.74
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.25
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	10.10

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.