Gene detail

Detailed information of OS493_004251-T1 in Lophelia pertusa

Genomic Location: scaffold_8:4242716...4246114
NR annotation: KAJ7387274.1, Intraflagellar transport protein 20 [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
Q61025	Intraflagellar transport protein 20 homolog OS=Mus musculus OX=10090 GN=Ift20 PE=1 SV=1
Q8IY31	Intraflagellar transport protein 20 homolog OS=Homo sapiens OX=9606 GN=IFT20 PE=1 SV=1
Q58CS6	Intraflagellar transport protein 20 homolog OS=Bos taurus OX=9913 GN=IFT20 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008713 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14931 all species →	IFT20	Intraflagellar transport complex B, subunit 20	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR028172 all species →	Family	Intraflagellar transport protein 20	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31978 all species →	INTRAFLAGELLAR TRANSPORT PROTEIN 20 HOMOLOG	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005794 all species →	Cellular Component	Golgi apparatus	Interproscan
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:0042073 all species →	Biological Process	intraciliary transport	Interproscan
GO:0051642 all species →	Biological Process	centrosome localization	Interproscan
GO:0061512 all species →	Biological Process	protein localization to cilium	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
K16473	IFT20; intraflagellar transport protein 20	-	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_004251-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

109TPM > 0

7Conditions

94.6Max TPM

26.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	21.65	42.67
polyp at pH7 6	18	18	26.17	49.34
coral polyp · control treatment	16	16	33.25	84.51
coral polyp · oil and dispersant treatment	16	16	26.81	94.56
coral polyp · oil treatment	16	16	28.95	41.20
coral polyp · dispersant treatment	16	16	18.43	28.10
Polyp	10	9	31.43	55.73

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.67
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.54
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.11
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.82
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.77
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.75
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.14
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.74
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.50
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.44
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.80
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.86
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.14
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.67
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.21
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.89
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.36
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.31
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.34
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.76
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.76
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.92
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.93
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.47
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.95
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.14
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.37
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.13
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.72
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.65
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.17
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.15
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.64
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.32
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.35
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.32
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	84.51
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.60
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.48
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.03
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.29
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.29
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.69
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.66
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.03
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.47
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.98
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.63
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.35
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.22
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.10
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.74
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	94.56
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.51
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.49
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.19
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.60
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.80
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.06
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.25
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.03
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.59
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.00
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.26
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.28
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.72
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.30
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.34
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.20
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.28
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.06
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.60
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.50
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.52
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.46
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.32
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.03
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.05
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.37
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.08
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.36
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.84
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.75
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.73
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.10
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.45
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.88
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.33
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.76
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.93
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.85
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.49
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.37
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.33
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.67
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.66
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.95
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.26
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.70
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.17
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	55.73
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	46.71
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	43.44
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	35.85
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	35.26
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	30.08
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	26.80
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	26.74
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	13.71
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.