Gene detail

Detailed information of XP_032235309.2 in Nematostella vectensis

Genomic Location: NC_064047.1:7497643...7554855
NR annotation: XP_032235309.2, kinetochore protein NDC80 homolog [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032379418.2

CGCGTTCAAATAAAGCGCGGGATTCGAGCAACGACTCCATTTCTTGTTGTTCTTGTCGAAAATCGCTTCTTTCCATCAAAATACATATAGCACAAGTCACCAATACAGTCAAAATGAGGCGGCAAACGCTTGGGATGCTAAATATTGGCAATCAGCCTCGGCAAccccaagaaaaaaagaaatcgtTGGGCTCAAGAAGACAGTCTACCGGTGGAAGGCTATCGTTGAGTGGTCGTCCGTCGGGCATTAGAAGATCCAGTCAATATGGTGCTGGAAGCTCACAGGTGGTAAAAGATCCCCGGCCTTTGTCTGACAAAGGATATCAACAAAAGATGATTAGAACTCTAACAGAGTTCCTGACAGAGTTTAATTACCCCCACCCAATCTCCAATAGAATCCTGAGTGCTCCACCAATGAAGGAGTTTAAACgaatttttttgTTTATCTACAAGTATGTCAATGACAGCTCAAAGGTTCAAACTGCAATCGAGAAAAAGCCTGAAGAAGAAATTCCAAAGATCTTGAAAATGCTTGGGTACCCATTTAACATCTCCAAAAGCTCCATGTTCTCAGTTGGTAGTCCCCATACCTGGCCAAACTTACTGGGAGCCCTGTGTTACCTTATTGAGCTTATAAGGTATTGCATCGAACTGAGTGACAGTGACAATATCCTGTTTCTGGAAGATGCATGTGAAGGAGCAGATGCCGGCGATGGTCCAAGCTATTTCGACAAGTGTTACTTTGAATACCTGGAGAAATCATACTCTGCTTTTCTGATGGGCAAAGAGCTGGATGAACTTGAGGAGTATGATCATGATTTTTACCAGCAGATCCGATCCAAGTATAATGCCAAATACCAAGagCTTGACGAGCTGAAGACTGAAAATGCAGAATTGGAAAATGAGCTTGCAAAACTAGAAGGAATGTCAATGCTTCAGGATTGTATCCAACAAAAGAAAGGCCTTGCTGCAGATGAAGAGAAATTCCGCAAATACATCGGAGATCTAAAGCGACACTCCACCAAGATGGAGGAGTCAGATGCGCAGACAGAAGAAGAAATCCAAGCAATAAGACTTGAGCTTGAAGAGATCACAAGAGAAAACACACAATTACAGACCCAGCTCAACCAACAAGAGCTGAGTCCAGCTGATGTAGAGAACATGAAGAAGGAGAAACAAGAATGCAAGAAGATGGTGCAGACCTTGGAGCAGAAACGGGATGGGATTGACCAGCAAATATGGGAGCAGGAGATGAAGTTTGCTAAGACCCATGAAGAGACTCATAAGCTTGTTAGCGAGTATAACGTGACAGCAAGGAAGCTAAAGCTGATCCCGGCGTCCGCCCCAAATGCACTGGGTCTGGACCTAGAAATGCGCTTTAACCCAATGGATATGCAGCCAGACTTTGGTAAACACTTCAAGGCAAAAATCAAGAACCCGCTTATCAGCCTCAAGCAGAAAATCGCGGAATCAACGCGGGAAATTCAGTCGCACAAGATCACCGAAGTGGAGAGTCTGGACCAGATAACGGATATGGTCGAGTCGAAAAAGGAAGAAGCGGAGGCTCTGGAAGCAAAGCTTGCGGGACTAGATAAGGAATTGGAATGGAGAAGAGACGTAATGAATAAAGAATATACACGACTTGCAAGCGAACTGCAAGCGCAAGAAGACAAAGTGCTCAACATGAAACAGCAAGTCCAAGCAGGAACCGAGAAGAAAGAGCAGGAGCTTAGAGAAGTGCAAGAAAGGGCGGAGTCACGCCTCCAAGAGATGGCCAATATGCATAAAGAGTACGATGACTTTCTTGGGCGGGCAGGGATGCTTGTCATGGATCACAAGACAATTATGCAGAATCGAGTATCAGAGATCCAGCAACTAGCAAAAGACCAACTCAACCAGGCAAAGCGCCCGAACTCATGAGAACCCGCGAACCCTGGATGTTGTAAATAATCGCACCAGTGTTGATGTAAAATTTCTTCCTGAAAAGTCAAAATCAAACCATCGTAATTTTTCCATTGTTTCACTACTAAAAGAGTGCAATCTACCCTAGTGTGAGAACCACCTGTAAGTGATATAGCTGCCCCGATCAATCAGATATGCTGACATATCGTTTACAGCAATATGGCTTTGGATGCTATTCTGTCGCAACAAAGATTTCGACCCCCTTAAAAAGAGAGAGAAttgatcttgttttttttttctatttaataTTACATCTGTGTATGTTCattatagcattattttatataaatatttttgtttgaaaaa

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
Q6DRJ7	Kinetochore protein NDC80 homolog OS=Danio rerio OX=7955 GN=ndc80 PE=2 SV=1

Gene family

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

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03801 all species →	Ndc80_HEC	HEC/Ndc80p family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005550 all species →	Family	Kinetochore protein Ndc80	Interproscan
IPR038273 all species →	Homologous_superfamily	Ndc80 domain superfamily	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K11547	NDC80, HEC1, TID3; kinetochore protein NDC80	-	Chromosome and associated proteins	ko03036	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of XP_032235309.2 across 48 RNA-seq samples of Nematostella vectensis. 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.

48Samples

38TPM > 0

16Conditions

18.6Max TPM

5.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	13.42	18.56
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	8.76	11.09
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	3.02	5.17
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	2.97	3.57
whole 6 week old aboral regenerate · regenerate uncut	3	3	3.59	4.31
whole 6 week old aboral regenerate · regenerate 4hpa	3	1	1.14	3.41
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	7.85	13.12
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	7.58	8.82
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	2.46	4.15
whole 6 week old aboral regenerate · regenerate 20hpa	3	2	1.78	3.12
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	2.91	4.53
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	9.36	14.06
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	15.60	18.52
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	9.41	14.53
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	1.61	2.71
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	0.85	2.55

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	18.56
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	12.36
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	9.35
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	11.09
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	8.59
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	6.59
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	5.17
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	1.96
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	1.94
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	3.57
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	3.25
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	2.09
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	4.31
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	4.06
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	2.40
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	3.41
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	13.12
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	10.42
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	0.00
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	8.82
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	8.76
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	5.16
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	4.15
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	3.22
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	3.12
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	2.23
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	0.00
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	4.53
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	2.12
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	2.08
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	14.06
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	14.01
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	0.00
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	18.52
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	15.64
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	12.65
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	14.53
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	13.71
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	2.71
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	2.12
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	0.00
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	2.55
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00

Source: CnidoSite RNA-seq expression matrices (NVECT_TPM, StringTie quantification over 48 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.