Gene detail

Detailed information of OS493_039388-T1 in Lophelia pertusa

Genomic Location: scaffold_1113:3691...9309
NR annotation: KAJ7375714.1, TeTratriCopeptide repeat [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
Q5W5X9	Tetratricopeptide repeat protein 23 OS=Homo sapiens OX=9606 GN=TTC23 PE=1 SV=1
Q2KHY7	Tetratricopeptide repeat protein 23 OS=Bos taurus OX=9913 GN=TTC23 PE=2 SV=1
Q4V7F0	Tetratricopeptide repeat protein 23 OS=Rattus norvegicus OX=10116 GN=Ttc23 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007411 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_039388-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR019734 all species →	Repeat	Tetratricopeptide repeat	Interproscan
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR042621 all species →	Family	Tetratricopeptide repeat protein TTC23/TTC23L	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14485 all species →	TETRATRICOPEPTIDE REPEAT PROTEIN 23	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_039388-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_039388-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

19.0Max TPM

7.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.50	10.04
polyp at pH7 6	18	18	7.17	11.28
coral polyp · control treatment	16	16	9.16	16.33
coral polyp · oil and dispersant treatment	16	16	6.83	18.99
coral polyp · oil treatment	16	16	8.22	12.23
coral polyp · dispersant treatment	16	16	2.97	6.79
Polyp	10	10	8.50	12.74

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.04
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.58
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.87
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.69
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.62
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.32
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.25
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.64
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.41
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.39
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.22
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.19
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.82
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.57
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.23
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.94
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.34
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.94
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.28
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.71
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.60
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.25
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.70
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.61
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.42
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.38
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.13
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.06
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.71
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.68
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.02
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.76
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.70
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.39
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.31
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.26
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.33
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.30
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.11
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.28
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.86
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.91
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.85
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.55
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.27
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.17
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.10
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.05
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.78
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.96
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.69
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.37
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.99
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.55
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.50
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.38
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.36
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.08
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.87
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.29
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.26
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.09
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.97
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.51
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.29
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.57
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.33
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.23
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.23
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.39
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.17
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.40
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.85
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.45
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.31
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.68
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.10
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.75
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.19
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.03
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.83
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.13
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.95
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.01
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.79
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.46
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.33
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.24
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.97
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.67
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.49
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.48
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.19
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.09
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.71
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.69
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.51
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.44
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.29
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.23
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.74
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	11.74
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	11.50
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.50
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	9.09
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.88
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.22
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.75
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.95
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.66

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.