Gene detail

Detailed information of XP_032238355.2 in Nematostella vectensis

Genomic Location: NC_064040.1:8819935...8826379
NR annotation: XP_032238355.2, WASH complex subunit 1 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032382464.2

AGTAAAGCAGAATTTTCGATCTCTGCCATCGTTTGCAAGATGCCGGTGCAAGGCTATAATGTACCGCTAGTTCCTCCTAGTTTACGACGCGAAGAGTCCATAAATCAAATCATCGATGCTTTAGAGTACCTAGAAAGAGTCACCGATGACATTTTCACTAAAATCAGTTCAAGGGTCGGAGAAAATCGGACAAGGCTGGACTCACTAAATCAGAGAGTCGACCTCGCACAAGCCAAGATCGACAGAATCAAGGGCATCAAGAAAGCCACTCGAGTATGCTCTAGCGCAAAATATCCAGCTCCCCAAAAACTAGAGGGATACAAGTCTCTTTATGCAAGTTATAGCGATGTCATAGAAGTAAACCGTAAAAATTACAACCTGAATTCCAAATTCACCTCTGTCGACGAAACGATCATGAAAGAGAAATTGCAATTTTATAATGTCCACTTAAATATGAAGAAAAAGAACGATTTATCACAGGAGGAAGGCCTAGGATCTTTGCCTAAGAATCTTCATTCCATCAgctctttgttgttgtttaacaCTACTGAAAATCCGTACAAAAAATATGTCATGCTAGACCCGCTTGCAGGGGCCGTGACCAAGACAAGGAGTAATATTGAGGAGGAAGAAGATATTGGGGCGGCACCAATCTCCATCAGTCAAGGGGATGAGATTGACAGAATGGCAGCTGCCAATTATTTCTATGTGCCAAACCTTGGTGCAGTTCCTGAGATTGATGTACCCGTCTATCTACCAGATCTGCCTGGCATTGCAGATGATTTGGCATATAGTGCTGAACTTGGACCATCTATTGCCCCCTCTGTTCCTCAAGGTCTTGACCTCCCAGACGTTCTTGAACATGATATCCCTGAAGTACCAGACATAGTTACGGGGGGTGGGGCACctgtaccccctcccccacctgCAGGCGGATCAGCTCCTGCtccaccccctcctcctccaccAGGTGGGGCACCACCACCTCCCCCGccaccgccgccaccaccCCCTGGAGATGGCGGAGctccaccaccacctccaccCCCAACAGTTATGGATGGGCCTCCAGCAGAGGTCCCCGAAGGTGTCCCTGAAGCTGTGGCAAGCGATGGCAGGGCCTCCCTCATGGACGCTATCCGGAAAGCTGGCGGTAAGAAGGGTGCCAAGCTCAAGACCGCCAAAGAGAGAAAGCAGATCAAGAAGGCTGAAAAAGAGCAGGCTGCAACATCTTCTGGTGGTGGCGACCTTAtgggtgatctgtttagtAAGCTTCAGATGAGGAGAAAGGGAATATCAGGTTCTAAAGGGGAGAGTTCAGGCACTGATAAGGGTGGTGGAGGATCAGCTATGGATAAGATCTCTGCAATGATCCCAGCCCCCCCTAAAGCTGAACGATCCGACACTACCAAAACTAGTGAAAGTGATGACTGGGATGCATAATaggttattatttttattattattattattattttttgtagtGCTGCAATGAAACCCTGACTaagcaatttttttgttttctagttTTTGAAAACAGATATTGTGGGGAAAGGATAGCCATTTTATGTAATCTAAAGTCAGTCCAATTTAATCCTCATCCATACCAAAAAAGATATGCATAATAGTATATACTTAATATTAATTTTAATTCACCCCTGTAAAATTGTGTCAGCTATGGTTATTgtaatatttcaataaacattTGCTTCTAATATAAAATCTGGGTTTATCACCAAGTAGGGGAAGGTATGGTATATAATTGCATATATGTTTGTCCTCTCCAGGTTTGTGTAAGGAGATtctttatgtatttttttaggtctGAATACAGAGGGTCAGCATCTGTTATGGTCTGTACTGCTTTTTGCAGTAAGGTTTAGGTAAAACTATCTAAAACAAGGTTAGGCTTGATCATATTAAAGTATAAAATTTGACAATCTTTGATTAAGAAATGAccctgggggtgggggggaaaagtgatagggatgctaGTCGGGAAAATTCGATAAATACCCCTTAAAAATACCTGCAcgaccaaaaattgctaccctaaacAATGCCTCAGGAgccttaaaaataccatttataagagaaaagccttttttttctctgataccccctaaaaaatacctgaggtccgattttgacccctaaaaaatatgaggagcatccctatcaagttgacatgggaagaacccctctccccccccggAAATAAACCTCTTTTTGGAAGTGGGGCAGCGAGTGCTCTCCAAGGCAccccctagctacatgccAGATCCCTTGAAATGCTTGAAATCATGAAAATGTTATGTGAGTCCTGTTAAGGCAAGTTCTACTGTGTGCATGTTAAGGATACTTTATCCTCTTAAAGGTCAAGTTTATTGACCCAAATTTGAGGTATTTCTATTCATGTTTTGCTCAAGTTCCActgaaaatattttacttGTTGTCAAAACATAAGATAACTGTGATTtcttaaaaatgatttatagttgaaaaaaataaaaatacttgtATATTCCGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A4IG59	WASH complex subunit 1 OS=Danio rerio OX=7955 GN=washc1 PE=2 SV=2
Q8VDD8	WASH complex subunit 1 OS=Mus musculus OX=10090 GN=Washc1 PE=1 SV=1
Q28DN4	WASH complex subunit 1 OS=Xenopus tropicalis OX=8364 GN=washc1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008862 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF11945 all species →	WASH_WAHD	WAHD domain of WASH complex	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR028290 all species →	Family	WASH1	Interproscan
IPR021854 all species →	Domain	WASH1, WAHD domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23331 all species →	CXYORF1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005769 all species →	Cellular Component	early endosome	Interproscan
GO:0006887 all species →	Biological Process	exocytosis	Interproscan
GO:0032456 all species →	Biological Process	endocytic recycling	Interproscan
GO:0034314 all species →	Biological Process	Arp2/3 complex-mediated actin nucleation	Interproscan
GO:0042147 all species →	Biological Process	retrograde transport, endosome to Golgi	Interproscan
GO:0043014 all species →	Molecular Function	alpha-tubulin binding	Interproscan
GO:0043015 all species →	Molecular Function	gamma-tubulin binding	Interproscan
GO:0055037 all species →	Cellular Component	recycling endosome	Interproscan
GO:0071203 all species →	Cellular Component	WASH complex	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
K18461	WASH1; WAS protein family homolog 1	-	Membrane trafficking	ko04131	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_032238355.2 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

39TPM > 0

16Conditions

14.4Max TPM

6.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	2	7.78	13.86
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	6.64	9.05
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	6.42	6.95
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	8.01	10.38
whole 6 week old aboral regenerate · regenerate uncut	3	3	6.20	6.43
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	4.98	7.61
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	10.35	14.38
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	9.44	9.86
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	5.03	8.32
whole 6 week old aboral regenerate · regenerate 20hpa	3	2	4.17	6.52
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	6.08	7.81
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	6.46	10.31
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	9.36	11.15
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	6.71	11.25
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	5.02	8.07
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	2.40	7.20

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	13.86
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	9.48
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	0.00
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	9.05
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	5.99
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	4.88
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	6.95
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	6.32
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	6.00
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	10.38
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	7.84
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	5.81
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	6.43
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	6.28
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	5.89
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	7.61
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	7.34
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	14.38
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	8.72
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	7.94
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	9.86
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	9.45
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	9.01
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	8.32
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	6.76
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	6.52
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	6.00
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	7.81
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	5.25
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	5.17
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	10.31
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	9.07
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	11.15
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	9.96
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	6.97
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	11.25
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	8.89
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	8.07
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	7.00
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	7.20
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.