Gene detail

Detailed information of OS493_021607-T1 in Lophelia pertusa

Genomic Location: scaffold_83:1515483...1536749
NR annotation: KAJ7358819.1, hypothetical protein OS493_021607 [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)	OG0003434 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_021607-T1. This gene does have a gene model — the search simply returned no hit.

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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K19679	IFT74; intraflagellar transport protein 74	-	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_021607-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

85.0Max TPM

22.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	18.67	30.97
polyp at pH7 6	18	18	17.47	28.39
coral polyp · control treatment	16	16	29.09	79.86
coral polyp · oil and dispersant treatment	16	16	24.90	85.03
coral polyp · oil treatment	16	16	25.80	35.92
coral polyp · dispersant treatment	16	16	18.30	32.73
Polyp	10	10	19.81	29.80

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	-	30.97
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.83
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.86
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.69
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.55
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.21
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.17
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.31
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.81
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.67
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.02
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.79
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.46
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.53
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.12
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.59
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.14
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.37
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.39
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.63
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.75
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.06
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.79
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.44
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.96
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.70
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.76
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.37
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.29
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.95
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.41
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.20
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.66
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.04
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.85
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.22
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	79.86
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.54
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.30
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.36
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.12
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.24
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.82
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.05
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.33
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.41
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.88
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.21
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.07
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.82
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.69
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.80
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	85.03
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.15
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.21
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.41
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.25
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.84
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.69
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.88
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.20
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.86
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.93
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.93
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.10
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.52
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.77
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.57
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.92
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.64
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.29
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.18
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.01
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.94
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.53
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.66
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.99
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.60
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.64
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.93
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.73
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.65
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.74
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.37
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.73
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.27
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.47
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.57
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.59
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.83
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.54
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.50
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.15
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.14
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.12
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.06
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.03
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.99
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.77
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.98
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	29.80
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	26.73
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	24.64
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	22.28
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	21.33
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	17.93
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	17.29
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	14.11
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.66
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	11.35

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.