Gene detail

Detailed information of OS493_010610-T1 in Lophelia pertusa

Genomic Location: scaffold_26:606624...630248
NR annotation: KAJ7386216.1, Tetratricopeptide repeat protein 30A [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
A4IHR1	Intraflagellar transport protein 70A OS=Xenopus tropicalis OX=8364 GN=ift70a PE=2 SV=1
Q6INU8	Intraflagellar transport protein 70A OS=Xenopus laevis OX=8355 GN=ift70a PE=2 SV=1
A7YE96	Intraflagellar transport protein 70A OS=Danio rerio OX=7955 GN=ift70a PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005156 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_010610-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR019734 all species →	Repeat	Tetratricopeptide repeat	Interproscan
IPR039941 all species →	Family	Tetratricopeptide repeat protein 30	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR20931 all species →	UNCHARACTERIZED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005879 all species →	Cellular Component	axonemal microtubule	Interproscan
GO:0030992 all species →	Cellular Component	intraciliary transport particle B	Interproscan
GO:0042073 all species →	Biological Process	intraciliary transport	Interproscan
GO:0120170 all species →	Molecular Function	intraciliary transport particle B 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K19683	TTC30, DYF1; tetratricopeptide repeat protein 30	-	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_010610-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

49.9Max TPM

14.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	11.91	20.85
polyp at pH7 6	18	18	10.94	18.63
coral polyp · control treatment	16	16	17.40	49.94
coral polyp · oil and dispersant treatment	16	16	13.32	40.31
coral polyp · oil treatment	16	16	15.68	20.04
coral polyp · dispersant treatment	16	16	15.30	28.67
Polyp	10	10	13.58	23.47

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	-	20.85
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.05
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.60
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.60
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.55
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.52
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.47
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.46
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.10
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.16
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.62
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.86
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.69
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.35
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.33
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.30
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.07
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.88
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.63
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.44
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.50
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.11
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.94
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.61
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.57
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.45
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.40
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.36
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.74
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.74
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.22
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.21
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.45
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.47
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.07
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.03
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.94
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.30
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.09
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.00
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.76
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.71
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.81
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.30
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.55
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.36
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.92
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.93
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.84
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.10
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.85
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.31
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.21
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.88
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.86
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.54
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.26
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.85
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.77
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.14
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.71
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.10
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.70
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.51
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.22
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.52
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.62
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.04
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.95
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.16
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.61
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.38
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.98
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.36
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.88
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.99
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.63
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.43
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.17
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.70
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.04
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.37
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.24
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.67
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.52
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.43
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.89
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.54
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.05
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.64
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.51
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.46
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.64
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.02
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.80
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.64
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.93
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.41
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.69
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	23.47
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	23.21
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	18.51
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.73
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	14.59
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	14.14
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.99
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.84
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.99
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.29

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.