Gene detail

Detailed information of OS493_039302-T1 in Lophelia pertusa

Genomic Location: scaffold_1053:4494...12065
NR annotation: KAJ7375720.1, LRR domain binding, 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: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_039302-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_039302-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

26.8Max TPM

14.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	14.08	24.28
polyp at pH7 6	18	18	16.07	26.80
coral polyp · control treatment	16	16	17.33	24.97
coral polyp · oil and dispersant treatment	16	16	17.46	25.67
coral polyp · oil treatment	16	16	14.77	20.67
coral polyp · dispersant treatment	16	16	11.42	20.56
Polyp	10	10	11.50	19.83

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	-	24.28
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.30
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.78
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.07
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.66
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.41
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.34
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.25
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.17
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.09
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.99
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.93
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.15
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.08
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.96
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.51
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.04
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.45
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.80
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.00
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.10
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.09
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.06
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.91
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.65
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.84
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.34
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.90
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.39
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.19
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.19
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.24
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.20
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.36
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.92
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.16
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.97
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.43
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.98
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.70
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.77
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.24
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.86
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.18
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.73
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.56
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.50
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.29
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.00
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.36
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.68
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.05
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.67
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.59
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.78
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.84
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.41
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.79
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.52
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.45
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.06
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.70
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.39
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.33
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.62
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.55
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.92
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.79
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.67
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.19
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.76
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.51
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.57
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.04
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.90
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.74
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.61
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.35
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.33
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.42
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.47
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.87
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.56
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.26
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.56
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.59
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.39
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.58
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.56
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.28
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.46
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.33
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.21
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.78
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.67
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.60
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.29
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.03
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.65
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.81
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	19.83
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	15.07
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	13.97
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.41
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	12.06
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	10.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	9.26
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.77
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	7.10
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.53

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.