Gene detail

Detailed information of OS493_003987-T1 in Lophelia pertusa

Genomic Location: scaffold_8:1074808...1078305
NR annotation: KAJ7387024.1, Intraflagellar transport protein 52 [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
Q62559	Intraflagellar transport protein 52 homolog OS=Mus musculus OX=10090 GN=Ift52 PE=1 SV=2
Q9Y366	Intraflagellar transport protein 52 homolog OS=Homo sapiens OX=9606 GN=IFT52 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004959 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF21178 all species →	Itf52_C	Intraflagellar transport protein 52, C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR039975 all species →	Family	Intraflagellar transport protein 52 homolog	Interproscan
IPR048643 all species →	Domain	Intraflagellar transport protein 52, C-terminal domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12969 all species →	NGD5/OSM-6/IFT52	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005814 all species →	Cellular Component	centriole	Interproscan
GO:0005929 all species →	Cellular Component	cilium	Interproscan
GO:0030992 all species →	Cellular Component	intraciliary transport particle B	Interproscan
GO:0042073 all species →	Biological Process	intraciliary transport	Interproscan
GO:0060271 all species →	Biological Process	cilium assembly	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_003987-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_003987-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

89.0Max TPM

39.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	44.20	56.47
polyp at pH7 6	18	18	39.72	50.07
coral polyp · control treatment	16	16	41.85	88.97
coral polyp · oil and dispersant treatment	16	16	34.31	75.33
coral polyp · oil treatment	16	16	42.70	53.87
coral polyp · dispersant treatment	16	16	23.77	40.47
Polyp	10	10	52.21	73.74

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.47
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	55.31
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.14
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.93
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.55
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.03
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.70
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.52
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.72
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.45
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.75
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.11
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.67
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.14
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.18
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.03
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.12
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.85
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.07
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.29
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.05
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.39
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.34
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.09
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.92
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.31
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.99
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.06
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.50
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.07
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.46
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.88
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.95
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.70
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.80
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.15
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	88.97
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.58
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.82
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.79
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.52
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.26
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.14
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.90
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.49
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.15
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.35
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.59
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.50
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.39
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.05
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.16
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	75.33
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.54
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.87
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.44
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.34
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.68
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.85
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.04
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.63
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.59
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.22
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.99
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.70
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.76
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.20
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.84
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.87
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.60
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.14
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.17
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.75
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.61
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.54
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.07
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.60
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.28
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.06
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.36
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.14
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.39
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.09
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.49
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.47
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.14
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.70
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.98
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.31
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.95
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.25
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.78
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.87
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.71
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.68
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.65
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.86
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.94
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.35
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.74
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	73.74
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	66.04
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	65.07
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	63.46
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	63.35
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	53.52
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	39.20
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	37.64
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	34.44
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	25.68

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.