Gene detail

Detailed information of OS493_013564-T1 in Lophelia pertusa

Genomic Location: scaffold_37:1507907...1517166
NR annotation: KAJ7392191.1, Condensin-2 complex subunit D3 [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
Q6GN08	Condensin-2 complex subunit D3-L OS=Xenopus laevis OX=8355 GN=ncapd3.L PE=1 SV=1
Q6ZQK0	Condensin-2 complex subunit D3 OS=Mus musculus OX=10090 GN=Ncapd3 PE=1 SV=3
P42695	Condensin-2 complex subunit D3 OS=Homo sapiens OX=9606 GN=NCAPD3 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001997 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_013564-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan
IPR026971 all species →	Family	Condensin subunit 1/Condensin-2 complex subunit D3	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14222 all species →	CONDENSIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000779 all species →	Cellular Component	condensed chromosome, centromeric region	Interproscan
GO:0000799 all species →	Cellular Component	condensin complex	Interproscan
GO:0007076 all species →	Biological Process	mitotic chromosome condensation	Interproscan
GO:0010032 all species →	Biological Process	meiotic chromosome condensation	Interproscan
GO:0042393 all species →	Molecular Function	histone 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

No KEGG orthology assignment for OS493_013564-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_013564-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

74TPM > 0

7Conditions

6.7Max TPM

0.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	11	0.78	2.90
polyp at pH7 6	18	5	0.24	1.09
coral polyp · control treatment	16	14	0.98	6.72
coral polyp · oil and dispersant treatment	16	11	0.74	4.12
coral polyp · oil treatment	16	13	0.78	2.01
coral polyp · dispersant treatment	16	13	0.78	2.30
Polyp	10	7	0.56	1.41

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.90
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.12
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.85
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.29
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.18
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.14
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.08
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.95
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.56
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.54
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.42
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.09
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.07
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.92
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.71
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.57
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.72
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.44
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.17
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.10
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.07
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.07
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.63
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.51
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.46
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.43
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.42
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.27
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.24
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.14
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.12
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.47
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.47
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.05
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.03
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.68
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.68
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.57
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.39
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.23
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.12
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.01
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.62
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.29
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.27
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.17
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.16
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.82
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.78
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.77
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.68
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.32
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.31
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.24
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.30
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.05
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.23
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.17
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.06
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.96
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.91
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.78
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.72
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.56
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.43
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.22
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.14
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.41
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.12
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.87
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.76
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.64
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.45
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.35
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
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.