Gene detail

Detailed information of OS493_005818-T1 in Lophelia pertusa

Genomic Location: scaffold_12:1386267...1388232
NR annotation: KAJ7339420.1, mitotic spindle checkpoint protein Bub3 [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
Q9YGY3	Mitotic checkpoint protein BUB3 OS=Xenopus laevis OX=8355 GN=bub3 PE=1 SV=1
Q1JQB2	Mitotic checkpoint protein BUB3 OS=Bos taurus OX=9913 GN=BUB3 PE=2 SV=1
Q9WVA3	Mitotic checkpoint protein BUB3 OS=Mus musculus OX=10090 GN=Bub3 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002173 (this species only)
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10971 all species →	MRNA EXPORT FACTOR AND BUB3	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0000776 all species →	Cellular Component	kinetochore	Interproscan
GO:0005654 all species →	Cellular Component	nucleoplasm	Interproscan
GO:0007094 all species →	Biological Process	mitotic spindle assembly checkpoint signaling	Interproscan
GO:0033597 all species →	Cellular Component	mitotic checkpoint complex	Interproscan
GO:0043130 all species →	Molecular Function	ubiquitin binding	Interproscan
GO:1990298 all species →	Cellular Component	bub1-bub3 complex	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_005818-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_005818-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

117.2Max TPM

23.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	25.85	43.04
polyp at pH7 6	18	18	29.28	43.08
coral polyp · control treatment	16	16	28.86	117.19
coral polyp · oil and dispersant treatment	16	16	18.76	74.36
coral polyp · oil treatment	16	16	22.26	36.47
coral polyp · dispersant treatment	16	16	14.66	29.29
Polyp	10	9	22.75	47.27

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.04
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.75
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.84
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.50
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.28
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.63
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.78
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.17
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.50
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.24
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.29
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.14
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.49
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.32
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.63
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.23
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.99
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.42
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.08
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.27
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.56
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.56
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.59
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.34
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.47
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.35
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.22
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.17
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.81
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.36
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.71
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.03
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.71
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.89
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.03
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.88
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	117.19
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.40
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.26
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.91
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.06
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.76
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.44
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.36
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.13
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.98
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.43
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.81
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.15
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.03
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.09
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.82
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.36
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.76
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.32
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.95
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.84
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.62
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.33
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.54
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.21
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.79
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.07
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.45
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.98
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.98
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.90
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.47
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.10
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.54
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.25
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.90
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.21
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.41
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.82
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.56
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.55
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.54
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.93
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.03
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.19
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.55
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.11
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.29
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.64
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.99
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.44
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.69
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.48
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.46
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.09
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.06
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.78
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.81
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.86
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.57
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.81
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.97
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.67
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	47.27
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	28.32
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	26.37
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	24.98
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	24.62
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	24.09
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	23.59
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	14.19
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	14.09
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.