Gene detail

Detailed information of OS493_024746-T1 in Lophelia pertusa

Genomic Location: scaffold_117:459700...464135
NR annotation: KAJ7378083.1, Tetratricopeptide repeat protein 16 [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)

UniProt accession	Description
Q95LZ5	Tetratricopeptide repeat protein 16 OS=Macaca fascicularis OX=9541 GN=TTC16 PE=2 SV=1
Q8NEE8	Tetratricopeptide repeat protein 16 OS=Homo sapiens OX=9606 GN=TTC16 PE=1 SV=2
Q8C1F5	Tetratricopeptide repeat protein 16 OS=Mus musculus OX=10090 GN=Ttc16 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007692 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13181 all species →	TPR_8	Tetratricopeptide repeat	Repeat	Interproscan
PF13432 all species →	TPR_16	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

PANTHER

PANTHER term	Description	Source
PTHR45153 all species →	TETRATRICOPEPTIDE REPEAT PROTEIN 16	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein 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_024746-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_024746-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

46.9Max TPM

12.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.23	12.75
polyp at pH7 6	18	18	7.92	12.70
coral polyp · control treatment	16	16	17.77	46.93
coral polyp · oil and dispersant treatment	16	16	16.03	31.21
coral polyp · oil treatment	16	16	13.54	19.74
coral polyp · dispersant treatment	16	16	14.29	40.62
Polyp	10	10	10.95	16.67

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	-	12.75
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.30
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.67
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.62
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.86
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.75
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.59
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.17
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.68
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.32
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.32
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.03
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.75
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.73
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.62
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.19
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.11
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.60
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.70
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.77
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.65
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.37
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.83
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.99
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.10
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.99
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.67
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.40
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.30
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.01
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.81
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.23
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.85
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.52
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.30
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.12
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.93
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.30
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.75
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.02
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.81
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.45
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.77
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.75
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.08
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.97
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.70
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.63
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.98
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.90
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.01
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.24
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.21
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.55
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.47
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.36
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.12
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.84
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.77
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.04
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.41
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.19
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.78
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.05
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.40
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.28
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.17
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.91
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.74
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.95
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.58
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.50
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.10
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.57
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.52
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.42
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.08
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.63
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.20
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.97
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.67
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.16
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.39
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.25
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.62
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.96
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.76
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.68
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.05
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.29
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.13
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.21
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.86
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.01
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.40
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.86
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.80
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.13
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.81
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.14
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	16.67
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.33
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	12.09
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	11.94
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	10.01
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.70
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.44
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	9.29
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.03
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	9.01

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.