Gene detail

Detailed information of OS493_001662-T1 in Lophelia pertusa

Genomic Location: scaffold_3:7737491...7739539
NR annotation: KAJ7381514.1, Radial spoke head protein 4 A [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
Q8BYM7	Radial spoke head protein 4 homolog A OS=Mus musculus OX=10090 GN=Rsph4a PE=1 SV=2
Q8CDR2	Radial spoke head protein 6 homolog A OS=Mus musculus OX=10090 GN=Rsph6a PE=1 SV=1
Q5TD94	Radial spoke head protein 4 homolog A OS=Homo sapiens OX=9606 GN=RSPH4A PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001595 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04712 all species →	Radial_spoke	Radial spokehead-like protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006802 all species →	Family	Radial spokehead-like protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13159 all species →	RADIAL SPOKEHEAD-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0001534 all species →	Cellular Component	radial spoke	Interproscan
GO:0060271 all species →	Biological Process	cilium assembly	Interproscan
GO:0060294 all species →	Biological Process	cilium movement involved in cell motility	Interproscan
GO:0003341 all species →	Biological Process	cilium movement	Interproscan
GO:0005930 all species →	Cellular Component	axoneme	Interproscan
GO:0035082 all species →	Biological Process	axoneme 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_001662-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_001662-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

163.5Max TPM

66.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	51.16	74.29
polyp at pH7 6	18	18	49.25	90.98
coral polyp · control treatment	16	16	84.10	163.54
coral polyp · oil and dispersant treatment	16	16	68.26	150.86
coral polyp · oil treatment	16	16	76.07	124.46
coral polyp · dispersant treatment	16	16	59.35	128.54
Polyp	10	10	86.08	140.85

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	74.29
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	66.24
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.41
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.27
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.11
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.41
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.29
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.29
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.96
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.42
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.10
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.26
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.73
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.68
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.55
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.32
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.15
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.39
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	90.98
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	77.06
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.41
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.69
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.56
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.53
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.22
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.56
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.34
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.15
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.19
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.58
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.96
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.29
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.41
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.76
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.96
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.81
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	163.54
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	161.87
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	134.06
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	115.76
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	87.17
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	72.50
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.80
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.12
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	65.39
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	63.56
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	63.47
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.20
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.83
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.30
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.94
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.15
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	150.86
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	94.05
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	93.83
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	86.42
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	85.50
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	80.49
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.58
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.09
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.46
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.70
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.60
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.46
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.41
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.45
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.39
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.91
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	124.46
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	99.03
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	93.34
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.80
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	84.14
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	82.11
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	79.50
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.84
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	75.55
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	66.12
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.25
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.96
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.37
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.51
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.49
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.59
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	128.54
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	125.49
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	81.53
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	79.50
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	67.72
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.34
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.34
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.66
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.70
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.39
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.71
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.42
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.99
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.17
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.44
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.61
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	140.85
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	131.67
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	130.40
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	86.67
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	71.92
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	69.74
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	61.68
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	61.59
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	58.09
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	48.18

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.