Gene detail

Detailed information of OS493_011306-T1 in Lophelia pertusa

Genomic Location: scaffold_28:2741052...2742241
NR annotation: KAJ7373697.1, Tetratricopeptide repeat protein 5 [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
Q99LG4	Tetratricopeptide repeat protein 5 OS=Mus musculus OX=10090 GN=Ttc5 PE=1 SV=2
Q5BK48	Tetratricopeptide repeat protein 5 OS=Rattus norvegicus OX=10116 GN=Ttc5 PE=2 SV=1
Q0P5H9	Tetratricopeptide repeat protein 5 OS=Bos taurus OX=9913 GN=TTC5 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006469 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16669 all species →	TTC5_OB	Tetratricopeptide repeat protein 5 OB fold domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR038645 all species →	Homologous_superfamily	TTC5, OB fold domain superfamily	Interproscan
IPR032076 all species →	Domain	Tetratricopeptide repeat protein 5, OB fold domain	Interproscan

PANTHER

No PANTHER signature was recorded for OS493_011306-T1 in Lophelia pertusa.

Gene Ontology

No Gene Ontology signature was recorded for OS493_011306-T1 in Lophelia pertusa.

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_011306-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_011306-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

68.0Max TPM

11.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	12.05	19.04
polyp at pH7 6	18	18	13.12	24.66
coral polyp · control treatment	16	16	12.68	25.17
coral polyp · oil and dispersant treatment	16	16	8.51	23.94
coral polyp · oil treatment	16	16	11.35	19.81
coral polyp · dispersant treatment	16	16	5.27	11.33
Polyp	10	10	18.21	68.03

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	-	19.04
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.30
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.43
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.08
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.03
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.68
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.62
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.16
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.03
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.86
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.76
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.44
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.00
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.97
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.85
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.77
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.58
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.22
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.66
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.93
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.78
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.69
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.66
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.62
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.15
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.01
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.93
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.74
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.11
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.51
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.48
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.87
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.10
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.46
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.45
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.05
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.17
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.03
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.67
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.25
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.08
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.80
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.21
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.90
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.87
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.32
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.90
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.15
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.96
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.51
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.14
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.94
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.34
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.98
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.86
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.41
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.14
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.72
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.53
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.55
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.15
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.97
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.68
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.47
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.06
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.90
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.50
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.81
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.82
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.90
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.38
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.05
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.37
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.06
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.04
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.77
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.74
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.50
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.78
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.38
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.24
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.68
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.12
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.33
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.06
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.34
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.17
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.59
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.36
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.75
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.49
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.23
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.16
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.76
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.39
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.26
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.59
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.18
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.73
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	68.03
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	28.45
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	14.21
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	14.16
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	14.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	12.88
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	11.07
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.69
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.04
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.54

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.