Gene detail

Detailed information of OS493_039301-T1 in Lophelia pertusa

Genomic Location: scaffold_1053:524...3809
NR annotation: KAJ7375719.1, nucleic acid-templated transcription, partial [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)	OG0004819 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09738 all species →	LRRFIP	LRRFIP family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019139 all species →	Family	Leucine-rich repeat flightless-interacting protein 1/2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19212 all species →	LEUCINE RICH REPEAT IN FLII INTERACTING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000978 all species →	Molecular Function	RNA polymerase II cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	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_039301-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_039301-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

104TPM > 0

7Conditions

10.7Max TPM

3.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	3.94	6.52
polyp at pH7 6	18	16	3.94	10.75
coral polyp · control treatment	16	16	3.79	8.91
coral polyp · oil and dispersant treatment	16	15	3.40	7.33
coral polyp · oil treatment	16	16	3.30	6.60
coral polyp · dispersant treatment	16	15	2.43	4.91
Polyp	10	9	2.73	5.26

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	-	6.52
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.50
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.06
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.06
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.50
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.17
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.00
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.00
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.85
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.45
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.39
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.16
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.77
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.62
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.35
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.15
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.46
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.75
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.16
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.98
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.40
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.78
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.31
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.31
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.94
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.82
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.57
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.01
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.94
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.83
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.78
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.29
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.04
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.91
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.18
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.06
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.46
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.91
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.45
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.04
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.91
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.96
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.88
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.46
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.01
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.01
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.93
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.71
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.72
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.33
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.04
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.92
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.40
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.22
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.74
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.56
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.49
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.29
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.18
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.75
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.93
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.72
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.09
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.75
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.60
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.47
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.65
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.69
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.27
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.86
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.17
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.05
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.85
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.82
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.32
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.56
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.53
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.51
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.37
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.07
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.91
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.30
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.27
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.15
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.81
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.68
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.61
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.51
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.49
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.47
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.11
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.95
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.85
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.45
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.38
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.26
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.19
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.45
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.55
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.19
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.89
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.46
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.19
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.09
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.