Gene detail

Detailed information of OS493_024694-T1 in Lophelia pertusa

Genomic Location: scaffold_116:1129528...1129836
NR annotation: KAJ7384001.1, Dynactin subunit 6 [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
A7SGU3	Dynactin subunit 6 OS=Nematostella vectensis OX=45351 GN=dctn6 PE=3 SV=1
Q148G7	Dynactin subunit 6 OS=Bos taurus OX=9913 GN=DCTN6 PE=2 SV=1
Q502J7	Dynactin subunit 6 OS=Danio rerio OX=7955 GN=dctn6 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009407 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_024694-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR027777 all species →	Family	Dynactin subunit 6	Interproscan
IPR011004 all species →	Homologous_superfamily	Trimeric LpxA-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13072 all species →	DYNACTIN 6	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005869 all species →	Cellular Component	dynactin complex	Interproscan
GO:0007052 all species →	Biological Process	mitotic spindle organization	Interproscan
GO:0070840 all species →	Molecular Function	dynein complex binding	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
K10428	DCTN6; dynactin 6	-	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_024694-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

26.5Max TPM

14.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	17.75	25.51
polyp at pH7 6	18	18	16.93	26.53
coral polyp · control treatment	16	16	16.10	25.67
coral polyp · oil and dispersant treatment	16	16	11.69	18.06
coral polyp · oil treatment	16	16	15.13	20.34
coral polyp · dispersant treatment	16	16	7.84	17.46
Polyp	10	10	13.81	22.91

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.51
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.43
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.95
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.66
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.22
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.54
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.16
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.78
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.69
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.59
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.55
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.15
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.08
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.30
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.32
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.48
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.32
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.67
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.53
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.07
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.31
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.84
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.79
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.38
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.38
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.17
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.10
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.17
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.08
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.70
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.46
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.39
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.31
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.86
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.70
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.51
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.67
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.03
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.94
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.41
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.07
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.79
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.04
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.78
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.69
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.57
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.44
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.41
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.41
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.98
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.30
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.07
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.06
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.30
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.21
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.19
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.91
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.05
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.59
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.67
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.33
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.11
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.54
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.89
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.75
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.95
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.39
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.13
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.34
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.24
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.78
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.60
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.34
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.28
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.91
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.34
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.01
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.06
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.29
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.17
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.55
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.60
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.55
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.46
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.11
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.93
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.50
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.91
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.83
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.21
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.91
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.67
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.64
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.38
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.72
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.32
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.23
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.42
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.20
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	22.91
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	20.25
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	19.63
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	18.44
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	14.62
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	10.52
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10.17
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.52
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	7.99
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.01

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.