Gene detail

Detailed information of OS493_021611-T1 in Lophelia pertusa

Genomic Location: scaffold_83:1583802...1603131
NR annotation: KAJ7358822.1, hypothetical protein OS493_021611 [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
Q96LB3	Intraflagellar transport protein 74 homolog OS=Homo sapiens OX=9606 GN=IFT74 PE=1 SV=1
Q8BKE9	Intraflagellar transport protein 74 homolog OS=Mus musculus OX=10090 GN=Ift74 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003424 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_021611-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR029602 all species →	Family	Intraflagellar transport protein 74	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31432 all species →	INTRAFLAGELLAR TRANSPORT PROTEIN 74 HOMOLOG	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005813 all species →	Cellular Component	centrosome	Interproscan
GO:0005929 all species →	Cellular Component	cilium	Interproscan
GO:0030992 all species →	Cellular Component	intraciliary transport particle B	Interproscan
GO:0035735 all species →	Biological Process	intraciliary transport involved in cilium assembly	Interproscan
GO:0042073 all species →	Biological Process	intraciliary transport	Interproscan
GO:0048487 all species →	Molecular Function	beta-tubulin binding	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_021611-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_021611-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

108TPM > 0

7Conditions

82.8Max TPM

17.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	13.77	27.12
polyp at pH7 6	18	17	11.01	19.38
coral polyp · control treatment	16	16	24.69	77.19
coral polyp · oil and dispersant treatment	16	16	22.41	82.85
coral polyp · oil treatment	16	16	21.01	30.52
coral polyp · dispersant treatment	16	16	17.42	28.23
Polyp	10	9	8.46	16.82

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.12
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.67
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.13
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.76
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.15
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.96
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.42
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.57
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.83
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.85
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.72
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.77
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.35
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.94
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.03
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.91
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.47
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.22
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.38
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.43
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.01
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.82
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.83
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.40
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.21
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.19
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.61
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.32
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.13
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.04
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.58
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.48
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.17
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.93
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.65
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.19
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.53
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.03
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.39
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.57
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.38
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.89
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.78
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.45
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.43
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.35
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.48
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.36
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.03
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.80
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.40
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	82.85
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.96
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.50
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.03
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.70
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.22
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.29
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.14
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.72
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.74
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.07
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.39
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.90
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.73
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.27
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.52
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.06
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.94
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.08
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.55
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.95
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.61
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.53
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.97
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.65
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.10
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.08
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.30
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.90
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.45
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.47
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.23
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.97
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.50
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.43
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.54
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.22
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.10
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.29
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.24
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.09
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.01
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.45
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.37
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.96
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.97
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.30
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	16.82
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.77
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.59
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.47
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.94
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.83
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.59
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.50
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.08
SRR7746669	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.