Gene detail

Detailed information of OS493_000598-T1 in Lophelia pertusa

Genomic Location: scaffold_1:8384429...8389424
NR annotation: KAJ7394764.1, hypothetical protein OS493_000598 [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)	OG0008669 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13181 all species →	TPR_8	Tetratricopeptide repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019734 all species →	Repeat	Tetratricopeptide repeat	Interproscan
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR052630 all species →	Family	Tetratricopeptide repeat protein 17	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16091 all species →	TTC17 PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0015629 all species →	Cellular Component	actin cytoskeleton	Interproscan
GO:0030041 all species →	Biological Process	actin filament polymerization	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K24931	TTC17; tetratricopeptide repeat protein 17	-	Cilium and associated proteins	ko03037	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_000598-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

66.1Max TPM

29.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	28.38	35.17
polyp at pH7 6	18	18	32.71	43.28
coral polyp · control treatment	16	16	31.18	66.14
coral polyp · oil and dispersant treatment	16	16	27.00	56.87
coral polyp · oil treatment	16	16	29.97	41.80
coral polyp · dispersant treatment	16	16	24.19	41.74
Polyp	10	10	32.40	48.68

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.17
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.86
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.96
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.72
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.52
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.46
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.62
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.56
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.41
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.34
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.04
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.23
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.94
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.84
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.87
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.80
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.33
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.16
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.28
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.13
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.17
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.68
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.20
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.04
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.61
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.57
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.13
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.94
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.74
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.98
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.29
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.92
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.21
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.09
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.22
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.61
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.14
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.57
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.84
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.57
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.56
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.09
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.05
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.14
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.96
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.58
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.19
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.51
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.25
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.14
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.70
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.64
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.87
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.07
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.26
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.41
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.35
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.69
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.35
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.21
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.80
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.29
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.93
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.25
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.65
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.92
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.21
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.77
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.80
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.65
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.87
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.55
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.88
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.19
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.18
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.12
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.91
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.91
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.68
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.90
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.41
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.33
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.59
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.47
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.74
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.05
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.18
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.88
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.75
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.63
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.67
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.52
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.93
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.88
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.87
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.96
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.31
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.22
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.29
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.09
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	48.68
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	40.56
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	33.55
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	31.70
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	30.93
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	30.42
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	28.69
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	27.36
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	26.18
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	25.98

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.