Gene detail

Detailed information of OS493_010531-T1 in Lophelia pertusa

Genomic Location: scaffold_25:2790472...2792164
NR annotation: KAJ7392870.1, Intraflagellar transport protein 46 [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
A7MBP4	Intraflagellar transport protein 46 homolog OS=Danio rerio OX=7955 GN=ift46 PE=2 SV=2
Q5DHJ5	Intraflagellar transport protein 46 homolog OS=Schistosoma japonicum OX=6182 GN=SJCHGC08984 PE=2 SV=1
Q1LZB4	Intraflagellar transport protein 46 homolog OS=Bos taurus OX=9913 GN=IFT46 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005537 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12317 all species →	IFT46_B_C	Intraflagellar transport complex B protein 46 C terminal	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR022088 all species →	Family	Intraflagellar transport complex B protein 46	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13376 all species →	UNCHARACTERIZED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0042073 all species →	Biological Process	intraciliary transport	Interproscan
GO:0005813 all species →	Cellular Component	centrosome	Interproscan
GO:0030992 all species →	Cellular Component	intraciliary transport particle B	Interproscan
GO:0031514 all species →	Cellular Component	motile cilium	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_010531-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_010531-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

112.3Max TPM

41.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	49.08	76.67
polyp at pH7 6	18	18	48.26	65.41
coral polyp · control treatment	16	16	44.56	112.34
coral polyp · oil and dispersant treatment	16	16	38.07	88.31
coral polyp · oil treatment	16	16	41.77	64.18
coral polyp · dispersant treatment	16	16	22.06	42.76
Polyp	10	10	43.89	78.45

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	76.67
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	70.77
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	70.57
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	64.24
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	62.13
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	59.10
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.14
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.21
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.66
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.65
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.60
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.69
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.47
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.64
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.39
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.85
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.44
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.13
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.41
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.31
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.22
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	62.18
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.57
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.47
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.50
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.34
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.27
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.21
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.18
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.72
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.38
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.90
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.29
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.52
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.36
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.83
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	112.34
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.32
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.85
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.63
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.58
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.54
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.53
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.06
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.41
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.92
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.70
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.23
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.37
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.55
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.30
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.63
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.31
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.08
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.81
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.21
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.66
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.18
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.71
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.85
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.40
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.46
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.90
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.05
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.31
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.84
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.67
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.67
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.18
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.16
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.11
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.64
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.66
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.94
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.10
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.36
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.17
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.57
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.35
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.11
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.79
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.61
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.10
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.50
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.76
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.06
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.37
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.60
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.03
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.71
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.84
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.04
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.31
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.31
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.63
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.24
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.07
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.81
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.54
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.64
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	78.45
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	67.90
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	63.45
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	55.37
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	46.18
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	38.76
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	32.36
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	21.29
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	18.85
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	16.26

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.