Gene detail

Detailed information of OS493_034203-T1 in Lophelia pertusa

Genomic Location: scaffold_284:387784...400259
NR annotation: KAJ7382567.1, hypothetical protein OS493_034203 [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
Q5TZA2	Rootletin OS=Homo sapiens OX=9606 GN=CROCC PE=1 SV=2
Q8CJ40	Rootletin OS=Mus musculus OX=10090 GN=Crocc PE=1 SV=2
Q9BV73	Centrosome-associated protein CEP250 OS=Homo sapiens OX=9606 GN=CEP250 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002685 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF15035 all species →	Rootletin	Ciliary rootlet component, centrosome cohesion	Family	Interproscan

InterPro

No InterPro signature was detected for OS493_034203-T1. This gene does have a gene model — the search simply returned no hit.

PANTHER

No PANTHER signature was detected for OS493_034203-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

No Gene Ontology signature was detected for OS493_034203-T1. This gene does have a gene model — the search simply returned no hit.

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_034203-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_034203-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

293.5Max TPM

65.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	60.68	124.28
polyp at pH7 6	18	18	48.66	78.87
coral polyp · control treatment	16	16	77.99	121.69
coral polyp · oil and dispersant treatment	16	16	85.08	293.47
coral polyp · oil treatment	16	16	97.23	169.51
coral polyp · dispersant treatment	16	16	58.12	154.73
Polyp	10	9	15.48	38.59

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	124.28
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	122.34
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	121.52
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	117.71
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	71.34
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	69.92
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.08
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.90
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.60
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.69
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.11
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.10
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.13
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.09
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.27
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.71
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.38
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.06
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	78.87
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	72.53
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	72.34
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	71.99
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.24
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.65
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.56
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.30
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.82
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.61
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.71
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.85
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.76
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.72
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.45
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.68
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.33
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.39
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	121.69
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	105.40
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	100.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	97.40
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	93.23
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	85.65
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	82.75
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.65
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	76.84
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.09
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.38
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.17
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.50
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.01
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.07
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.95
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	293.47
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	226.67
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	117.36
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	99.56
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	89.84
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	80.39
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.36
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.08
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.56
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.89
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.60
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.51
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.55
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.63
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.18
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.70
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	169.51
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	156.67
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	155.16
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	148.54
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	138.15
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	136.43
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	117.91
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	95.25
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	88.08
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	86.34
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	78.28
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.22
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.03
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.31
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.73
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.04
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	154.73
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	109.59
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	84.96
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	76.02
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.13
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.38
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.28
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	58.85
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.62
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.97
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.58
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.52
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.63
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.03
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.95
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.67
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	38.59
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	33.77
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	22.88
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	22.33
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	11.38
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	9.31
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.88
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.10
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.54
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.