Gene detail

Detailed information of OS493_009828-T1 in Lophelia pertusa

Genomic Location: scaffold_23:3075927...3081021
NR annotation: KAJ7363666.1, kinetochore-associated Ndc80 complex subunit ndc80 [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
Q76I89	Kinetochore protein NDC80 homolog OS=Gallus gallus OX=9031 GN=NDC80 PE=1 SV=1
Q4R630	Kinetochore protein NDC80 homolog OS=Macaca fascicularis OX=9541 GN=NDC80 PE=2 SV=1
O14777	Kinetochore protein NDC80 homolog OS=Homo sapiens OX=9606 GN=NDC80 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003110 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_009828-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR005550 all species →	Family	Kinetochore protein Ndc80	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10643 all species →	KINETOCHORE PROTEIN NDC80	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0031262 all species →	Cellular Component	Ndc80 complex	Interproscan
GO:0051315 all species →	Biological Process	attachment of mitotic spindle microtubules to kinetochore	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_009828-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_009828-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

107TPM > 0

7Conditions

48.9Max TPM

4.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.76	9.78
polyp at pH7 6	18	18	5.57	10.69
coral polyp · control treatment	16	16	5.82	48.89
coral polyp · oil and dispersant treatment	16	15	4.39	37.16
coral polyp · oil treatment	16	16	3.28	9.55
coral polyp · dispersant treatment	16	16	3.22	6.15
Polyp	10	8	2.99	9.99

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.78
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.23
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.68
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.92
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.68
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.57
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.50
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.34
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.65
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.37
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.89
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.49
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.78
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.77
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.34
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.20
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.86
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.60
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.69
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.65
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.06
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.96
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.89
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.81
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.04
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.44
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.84
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.15
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.06
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.64
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.96
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.52
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.25
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.05
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.94
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.36
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.89
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.61
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.54
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.23
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.94
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.83
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.59
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.49
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.77
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.72
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.69
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.33
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.15
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.61
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.93
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.76
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.16
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.93
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.03
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.21
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.90
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.81
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.60
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.30
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.97
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.60
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.45
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.37
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.24
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.56
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.04
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	9.55
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.32
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.02
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.94
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.73
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.52
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.25
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.20
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.12
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.97
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.36
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.79
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.75
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.66
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.75
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.52
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.15
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.78
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.96
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.91
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.87
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.79
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.54
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.07
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.95
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.88
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.20
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.08
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.94
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.68
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.60
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.09
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.99
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.04
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.67
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.72
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.45
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.25
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.61
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.13
SRR7746668	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.