Gene detail

Detailed information of OS493_016549-T1 in Lophelia pertusa

Genomic Location: scaffold_50:2444801...2447746
NR annotation: KAJ7385465.1, CST complex subunit ctc1 [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
A0JMF1	CST complex subunit CTC1 OS=Danio rerio OX=7955 GN=ctc1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003958 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF15489 all species →	CTC1	CST, telomere maintenance, complex subunit CTC1	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029156 all species →	Family	CST complex subunit CTC1	Interproscan
IPR042617 all species →	Family	CST complex subunit CTC1-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14865 all species →	CST COMPLEX SUBUNIT CTC1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003697 all species →	Molecular Function	single-stranded DNA binding	Interproscan
GO:0010833 all species →	Biological Process	telomere maintenance via telomere lengthening	Interproscan
GO:0042162 all species →	Molecular Function	telomeric DNA binding	Interproscan
GO:0045740 all species →	Biological Process	positive regulation of DNA replication	Interproscan
GO:1990879 all species →	Cellular Component	CST complex	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_016549-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_016549-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

105TPM > 0

7Conditions

17.0Max TPM

3.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3.88	8.08
polyp at pH7 6	18	15	2.33	4.70
coral polyp · control treatment	16	16	4.21	12.18
coral polyp · oil and dispersant treatment	16	16	3.33	17.02
coral polyp · oil treatment	16	16	4.48	9.59
coral polyp · dispersant treatment	16	15	2.66	7.89
Polyp	10	9	3.45	9.07

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.08
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.61
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.41
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.54
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.35
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.13
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.34
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.90
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.63
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.57
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.56
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.47
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.40
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.24
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.13
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.02
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.97
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.44
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.70
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.50
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.31
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.21
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.61
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.21
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.72
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.71
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.12
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.09
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.93
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.68
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.62
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.59
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.84
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.18
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.49
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.52
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.11
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.10
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.71
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.86
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.44
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.35
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.29
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.12
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.08
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.01
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.83
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.64
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.60
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.02
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.63
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.45
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.53
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.12
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.42
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.18
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.16
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.10
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.50
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.18
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.79
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.73
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.72
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.53
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.24
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.59
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.08
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.67
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.48
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.08
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.06
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.13
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.46
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.84
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.48
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.39
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.07
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.57
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.52
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.11
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.11
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.89
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.83
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.89
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.74
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.65
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.88
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.23
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.13
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.97
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.86
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.40
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.81
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.47
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.43
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.36
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.07
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.87
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.22
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.55
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.48
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	2.34
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.99
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.80
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.19
SRR7746667	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.