Gene detail

Detailed information of XP_032220940.2 in Nematostella vectensis

Genomic Location: NC_064036.1:11277114...11298842
NR annotation: XP_032220939.2, WD repeat-containing protein 70 isoform X1 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032365049.2

AAGCATAATAATTTTGTATACAAATGGAGATGGAGGAAAacctttttattgaaaacGAAATCTGTGCTACCTGAAAACAACTGTGATACAAGACgcaaaaagccaaaaaaaactatattcCTATATTGATCAACCGGTCGGTTTTGCTATGGATGAATGCAGCTTTTACTTACTGGGACGACATCGCGGGATTTCGAATCAAGACTACTGCTTTAGAAGATAACCTATAGTACACACAAGTATCCATATAATGGAGGACGAAGATCTAGAGGAAATGAGAGCTTTACGAGCTTCTTCACGCTACGCATCGCCTTCAACTTCAGTCAAGTCTGCAGGATTTGGAAGTTTCGTAACATCACGACCAAATAGCTCACGTGCGACGCCATCTTCTACGACTGCATCAAAAGACTCGAGGAAGCATGAAAAGGCCCCAGCAGCTGATAACCAAAAACCTGAGGACACACCAGATATTGCTGCCATGATGGGCTTTTCAGGTTTTGGCAAAAAGAAAGCACAGACCTTCAATGTAGAGGAGATGTTTGCTAAGGCACGATCCACTGCACAGCAAGTCTCCCTTGCAAACCAGAAAGAGAAAGTTGTTGATGGGGATGAGGATGATAATGATGCTCCTTTTGTGATGCTTCCTCCAACAATGACTCGTAAATCTGATAAGACATCAGAAAGCAATAAGAAAGAGGAcagtgatgacgatgatgatgatgattatggtgatgatagtgataaaAGCAACGAGagTGTAGAGAAGAGCCTGCCTATTACTCATGAAGTGGCACTAGAACATGGCTCCAAGACTGTGTCAGCTGTGGCCCTTGACCCATCAGGATCTCGGCTGGTAACCGGTAGCTATGACTATGAGATCAAATTTTGGGATTTCAATTCCATGGACTCCAGCCTGCGAGCCTTCCGGACGTTACAACCTTTCGAGTGTCATCAGATTAAGTCAGCACAGTACAGCATTACAGGTGATGTCCTCCTAGTTGCTGCTGGCAATGCACAGGCCAAAGTACTTGACAGAGATGGCTTTGAGGCCTTAGAGTGTGTCAAGGGGGACCAGTACCTGACAGACATGGGCAACACAAAGGGACATACTGCAATGCTCCATTGTGCCTGCTGGCATCCCAAGCAAAAAGAACAGTTTATAACGTGCAGTGATGATGGGACTGTTCGAATTTGGGATGTAAACTCaccaaagaaaaacaagaacgTGATCAAGACAAAAAATAAGCAAGGAAAAAAGACAATTCCTACGAGATGCTGCTTCAGCAGAGATGGAAAGCTGATTGTTGCTGCTTGTCAGGATGGTTCCATACAGGCCTGGGACACAAAGCGCATGTTtGTTCACACTACATATCTACAGAGGGAAGCACACATGTCTGGCAGGGACACTTCTGGCCTTGACTTCTCACTGTCTGGGAATCTGCTTGTCTCGAGAGGAGGTGATGACACAGTAAAGACGTGGGATCTCAGAAACTTTAGAAAACCAGTCAACATAGCAACTGACTTACCTAACTTCTATTCCCAGACGTCGTGTCTGTTTAGTCCTGATGATCGTCTTATTGTCACTGGTACATCAGTCAGAAAAGGAGAGGGTATGGGCAAGCTGGTTTTTCTCGAAAAAGATACCCTGAACATTGCCTACCAGTTTGAGGTTGCAGACTCTAGTGTTGTAAGCTGCATGTGGCATCAAAAGCTGAATCAGATTATTGTCGGAACAAGCGACGGAAAAGTCAAGGTGTACTTTGACCCTAACCGCAGCAATAAGGGTGCAATGTTGTGCGTGGGAAAGACGCAACGAAAGAAAGTCCTCAGAGATATGGTCCTTCCTGATCACATAATCACACCGCACGCGTTGCCGATCTACCGCCAGAAGCAGCCAAGAAACATGAAGAAGGTGAAAGAAAGCGATCGTAAAGATCCCATCAAATCACGGCGACCAGATTTGCCCATGACAGGCCCAGGTAAGGGAGGGCGCGTCACATCAGGAATGTCGCTATCAGCATTTGTAGTCAAGAACCTTGCTCTTGAAAAGATGGACGATTCACACCCTCGCGAGGCTATACTCAAGCATGCAGAGGCTGCAAAAGATGATCCTTACTGGGTATCTCCAGCCTATAAAACGACACAACCAGAAACAATATTCCAGGAGCCTGAAGAGGATTCGGAAGAAGATGAAGACGAGGATCGAAGAAAGAGGATGAAAATAGTGTGACATATTGACAGCAGATCGTATGCCTTGTGGTATTACTGATACATAAGCAGAAAGTGCATGTTAACATTATTATTGAACATAATCATTTTCATGAGACCCTTCACGTGCATATATCGGTAGAGGGCAGTACTTGGTATATAAATAAATGCTTATATctaataatttgatttgaaatTCTATCAAAGCTGTCGCACACTTATGGCTTGACTGCTAAGTTTTATGGAACTTTAATAGCTAAAGTAATATTTCTACTCTTTTACATGAAAATTTGTTCACATAGGGTATGAATCCTGTCAGTAGGGGGGAACCTACATTATAACATTGTGTGGACTGATGACATTCTTTGCTGCAAATTATAATGCATTTTAAATTAATAACTATATTCAATAATTATCATAGCACAGCCCTCCTCCCCACGCTTCGTAGTTGACACCAGCACAATTGCAATTGTGTAGCTACAGTGTCACTTCAAATGTAGCACAGTACACAATGAATAAAAGGTCTGAACAACTGCGTAGGAAACTACAAACAGCGTTCAAGTATAATGGTCAACAGCCAATTCTGAATTCTGAAAAGTGAATTGTGATTGTTCATTTACAAAATGACGAAATGTCACAAACTAAAAAGAGCAAGCAACAGCTGTTTTCACAACCTTTGGCACCTTTACTTAAAGTGGATAAATACAACTGACATGTATTCAGGAGACAACGTTTCTGTATTTAATCAGATTTGACTgcattattttaaaataaatgacaTGTTTACGTA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q0VA16	WD repeat-containing protein 70 OS=Xenopus tropicalis OX=8364 GN=wdr70 PE=2 SV=1
Q6GPP0	WD repeat-containing protein 70 OS=Xenopus laevis OX=8355 GN=wdr70 PE=2 SV=2
Q32LB0	WD repeat-containing protein 70 OS=Bos taurus OX=9913 GN=WDR70 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003864 (this species only) · gene tree & orthology
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|CDC20 · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR020472 all species →	Repeat	G-protein beta WD-40 repeat	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR051858 all species →	Family	WD repeat-containing GAD-1	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR019775 all species →	Conserved_site	WD40 repeat, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16017 all species →	GASTRULATION DEFECTIVE PROTEIN 1-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0035861 all species →	Cellular Component	site of double-strand break	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
K24752	WDR70; WD repeat-containing protein 70	-	DNA repair and recombination proteins	ko03400	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_032220940.2 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

42TPM > 0

16Conditions

22.1Max TPM

14.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	16.85	20.30
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	13.38	18.28
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	15.69	16.23
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	15.63	16.62
whole 6 week old aboral regenerate · regenerate uncut	3	3	13.48	15.17
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	10.36	17.52
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	11.50	19.33
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	17.97	19.39
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	14.13	19.72
whole 6 week old aboral regenerate · regenerate 20hpa	3	2	11.79	18.23
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	16.67	18.68
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	11.27	18.61
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	16.19	17.86
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	12.14	20.44
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	16.99	19.30
whole 6 week old aboral regenerate · regenerate 12hpa	3	2	13.86	22.15

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	20.30
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	16.95
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	13.31
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	18.28
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	11.44
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	10.43
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	16.23
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	16.08
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	14.77
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	16.62
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	15.26
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	14.99
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	15.17
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	13.38
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	11.90
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	17.52
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	13.56
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	19.33
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	15.16
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	19.39
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	18.60
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	15.92
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	19.72
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	14.40
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	8.29
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	18.23
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	17.15
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	0.00
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	18.68
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	17.13
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	14.21
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	18.61
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	15.21
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	0.00
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	17.86
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	15.47
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	15.23
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	20.44
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	15.99
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	19.30
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	16.11
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	15.55
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	22.15
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	19.44
SRR6320878	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.