Gene detail

Detailed information of OS493_023524-T1 in Lophelia pertusa

Genomic Location: scaffold_104:1132469...1147626
NR annotation: KAJ7384195.1, hypothetical protein OS493_023524 [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)	OG0003991 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01344 all species →	Kelch_1	Kelch motif	Repeat	Interproscan
PF13854 all species →	Kelch_5	Kelch motif	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR051568 all species →	Family	LZTR1/Attractin	Interproscan
IPR006652 all species →	Repeat	Kelch repeat type 1	Interproscan
IPR015915 all species →	Homologous_superfamily	Kelch-type beta propeller	Interproscan
IPR018247 all species →	Binding_site	EF-Hand 1, calcium-binding site	Interproscan
IPR002048 all species →	Domain	EF-hand domain	Interproscan
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46376 all species →	LEUCINE-ZIPPER-LIKE TRANSCRIPTIONAL REGULATOR 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005794 all species →	Cellular Component	Golgi apparatus	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion 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

No KEGG orthology assignment for OS493_023524-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_023524-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

140.8Max TPM

31.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	11.68	20.61
polyp at pH7 6	18	18	13.38	24.04
coral polyp · control treatment	16	16	32.88	86.58
coral polyp · oil and dispersant treatment	16	16	72.51	123.75
coral polyp · oil treatment	16	16	31.03	63.02
coral polyp · dispersant treatment	16	16	48.02	140.82
Polyp	10	10	6.40	14.14

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	-	20.61
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.36
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.81
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.24
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.54
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.08
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.63
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.43
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.62
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.61
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.73
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.36
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.87
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.58
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.96
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.66
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.46
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.78
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.04
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.06
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.89
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.89
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.16
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.71
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.70
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.11
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.08
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.43
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.97
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.77
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.29
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.61
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.90
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.36
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.77
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.12
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	86.58
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.57
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.55
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.65
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.04
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.60
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.66
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.31
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.96
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.56
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.33
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.89
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.25
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.20
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.49
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.52
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	123.75
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	104.67
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	102.70
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	92.23
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	85.57
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.74
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	82.13
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	80.38
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	67.31
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.63
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.25
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.66
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.35
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.29
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.80
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.70
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	63.02
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.16
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.11
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.95
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.69
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.30
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.85
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.42
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.88
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.23
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.93
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.84
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.10
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.65
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.42
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.92
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	140.82
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	102.33
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	93.19
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.86
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.93
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.08
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.58
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.91
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.39
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.37
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.46
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.33
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.08
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.40
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.56
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.10
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	14.14
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	11.77
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.51
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.50
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.84
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.58
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.06
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.62
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.57
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.43

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.