Gene detail

Detailed information of OS493_012087-T1 in Lophelia pertusa

Genomic Location: scaffold_31:1634528...1636056
NR annotation: KAJ7392424.1, hypothetical protein OS493_012087 [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
Q9BPX3	Condensin complex subunit 3 OS=Homo sapiens OX=9606 GN=NCAPG PE=1 SV=1
Q9YHB5	Condensin complex subunit 3 OS=Xenopus laevis OX=8355 GN=ncapg PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004586 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12719 all species →	Cnd3	Nuclear condensing complex subunits, C-term domain	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027165 all species →	Family	Condensin complex subunit 3	Interproscan
IPR025977 all species →	Domain	Nuclear condensin complex subunit 3, C-terminal domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14418 all species →	CONDENSIN COMPLEX SUBUNIT 3-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000793 all species →	Cellular Component	condensed chromosome	Interproscan
GO:0000796 all species →	Cellular Component	condensin complex	Interproscan
GO:0007076 all species →	Biological Process	mitotic chromosome condensation	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_012087-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_012087-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

92TPM > 0

7Conditions

32.7Max TPM

3.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	12	1.79	3.72
polyp at pH7 6	18	12	2.00	5.61
coral polyp · control treatment	16	15	5.18	30.47
coral polyp · oil and dispersant treatment	16	15	4.24	32.67
coral polyp · oil treatment	16	16	3.39	7.84
coral polyp · dispersant treatment	16	14	2.78	6.42
Polyp	10	8	1.94	4.66

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.72
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.67
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.49
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.23
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.13
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.88
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.66
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.60
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.43
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.79
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.37
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.17
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	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
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.61
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.09
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.41
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.30
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.17
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.95
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.58
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.26
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.13
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.94
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.92
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.67
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
SRR11359503	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
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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.47
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.61
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.48
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.98
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.84
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.56
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.86
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.82
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.89
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.65
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.45
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.42
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.36
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.08
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.33
SRR16705992	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	32.67
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.28
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.62
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.52
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.38
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.15
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.56
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.44
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.18
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.92
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.59
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.50
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.13
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.12
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.81
SRR16705947	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	7.84
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.74
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.41
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.30
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.02
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.68
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.59
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.41
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.98
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.87
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.72
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.24
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.15
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.10
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.69
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.55
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.42
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.81
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.72
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.38
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.97
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.76
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.88
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.78
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.60
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.49
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.85
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.83
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.27
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.75
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.66
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.96
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.62
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.52
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.49
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.35
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.27
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.56
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.