Gene detail

Detailed information of OS493_027610-T1 in Lophelia pertusa

Genomic Location: scaffold_152:82522...95249
NR annotation: KAJ7383451.1, THO complex subunit 3 [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
Q96J01	THO complex subunit 3 OS=Homo sapiens OX=9606 GN=THOC3 PE=1 SV=1
Q8VE80	THO complex subunit 3 OS=Mus musculus OX=10090 GN=Thoc3 PE=2 SV=1
Q29RH4	THO complex subunit 3 OS=Bos taurus OX=9913 GN=THOC3 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007377 (this species only)
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|CDC20 · 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
PF07676 all species →	PD40	WD40-like Beta Propeller Repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR020472 all species →	Repeat	G-protein beta WD-40 repeat	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR011009 all species →	Homologous_superfamily	Protein kinase-like domain superfamily	Interproscan
IPR040132 all species →	Family	TREX component Tex1/THOC3	Interproscan
IPR000719 all species →	Domain	Protein kinase domain	Interproscan
IPR011659 all species →	Repeat	WD40-like beta propeller	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22839 all species →	THO COMPLEX SUBUNIT 3 THO3	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0000445 all species →	Cellular Component	THO complex part of transcription export complex	Interproscan
GO:0006406 all species →	Biological Process	mRNA export from nucleus	Interproscan
GO:0004672 all species →	Molecular Function	protein kinase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006468 all species →	Biological Process	protein phosphorylation	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
K18643	KATNB1; katanin p80 WD40 repeat-containing subunit B1	-	Cytoskeleton proteins	ko04812	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_027610-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

42.6Max TPM

9.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.21	15.41
polyp at pH7 6	18	18	11.26	16.35
coral polyp · control treatment	16	16	10.40	36.44
coral polyp · oil and dispersant treatment	16	16	7.77	42.63
coral polyp · oil treatment	16	16	8.87	11.79
coral polyp · dispersant treatment	16	16	4.64	9.39
Polyp	10	10	14.24	22.15

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	-	15.41
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.04
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.69
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.60
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.87
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.73
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.69
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.53
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.27
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.00
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.78
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.72
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.14
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.07
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.51
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.40
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.16
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.11
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.35
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.63
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.49
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.61
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.58
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.15
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.05
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.02
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.20
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.99
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.93
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.83
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.75
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.59
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.53
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.52
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.43
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.95
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.44
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.52
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.84
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.21
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.45
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.80
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.61
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.21
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.06
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.04
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.90
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.28
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.83
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.07
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.63
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.48
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.63
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.86
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.74
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.11
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.45
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.39
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.19
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.49
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.08
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.81
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.77
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.45
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.93
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.59
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.55
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.22
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.79
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.68
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.67
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.37
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.53
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.44
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.40
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.39
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.32
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.92
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.08
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.61
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.34
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.54
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.49
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.38
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.39
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.28
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.93
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.90
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.26
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.61
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.08
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.93
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.93
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.88
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.88
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.83
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.69
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.58
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.24
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.88
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	22.15
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	20.81
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	17.53
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	16.21
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	14.61
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.41
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	11.49
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	9.89
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	9.02
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.29

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.