Gene detail

Detailed information of XP_032230997.2 in Nematostella vectensis

Genomic Location: NC_064039.1:4424885...4433986
NR annotation: XP_032230997.2, protrudin isoform X2 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032375106.2

GTATTGATGTGCCAAAAAAAACGATCCCACCCCGAAAGTTCTTGATTTGATGGcgtttttaatcatttttacCTTGAATAACGGATGAAATGCCTTGAAAACCGGCGAGCCAAATCAAGATGAATTGTACTATAACTATACAACACACATATTAGGATGTGTGAAAAAGACACAAGAAGAACCGATGAAAAAGCTGACGAGACTTCCGATAATGACTCCCGAGAGAAAACTCGTACGGTCAAGTTTGATATCGGAGAATTTGTACACACACACCGTAAACTAAAGCTTCTTTGCTCCTCATGGGTGGATCTGTATCGCAGAATAGTGCTAGTATTCAGCTGGCAGTCCCCAAAGACGTCATTTGTGTGGTTTATCATCTGTAGCTACCTTGCCTTTATATCACCTGTGTGTTTTCTGGCTTTCCCATTGGCATACATCAGCATTCTCCTTGTTAGCTCTGGTATTCAAAGAGCTGGGACACATAACAGTACACTCTTGGACAAGAGTAAATTAATCAAGAAAAAGGCTGAAGACAAGCTGAATTCTAGGCTTGCATTGGAGAAACAAGTTAAAGAGGATTTGAAGGACTGCATCTATCTGCTGTCTCAGATAGAATCATTGAGTAATGATGTATGCCTCATTCTTCAAGAAATTCACAAtgTATTTATATGGAAAGATACCAGAAAATCCATAATATGCTTGGTGATCTTGTTATTATTGATTGTTTTCCTGTTGCTGATGGCGTGGAGATGGGTGATGCTTATTACTGTCCTGTCACTATTTTGCCTAAACTCTGGTTTTGATCAAGTCTTTAGAGGGCATGTTTTGCTGGCACATGGTAAAGTGAAAAGGTTTTGCAATCACATCCTGATGACAACAAGGTCCAGGCAGAGTTTAAGAAGACTGTCTTTTCAAGGCTCGTCTGACTTCACAGAACAATGGTTTGATGCCAAGGAGAGTGATACTACtggtgatgaagatgatgatataTCTGAACAAGAGGACACGAATGAGTCACTACAGATTCAGAAGACTACTGAGTACAAATCAGTGGTTTCAAGACTTGTTGACTATCGGCAGAAGCAGAAAAAGTTCAACAGTGgCAACTGTTCATCTTGTAATGTTCCTTTTAAGTCCATTCTAAAGAAACGGCAATACTGCCGTCACTGCGGAGAGGGCTTCTGCTCACGTTGCTGTTCTCATCGTGTGAAGAGGGCAGTGTTTGGTGCTACAGCGCCTGCTGCATACGCCGAGACTGTCTTGGTTTGTAAGCCCTGCTACGACTACCTCATGGGCCCGTACTCCGAAGACAAACCTGAGGAAGTTGATTCAGGGTAACCTGCTAACTGAAGACTATACAAGTAACCAGTTCAGCGGCTTTACTCTTCTGTTTAGCAAGTTTTTGTGGGGGTGGTCAGAGGAAATAGAAAATGTAGTATGGACCGCACGAAGAATCGGGACGAGAGGTCATGCCCTACGCTTGCTCTCTATTTCCTTTGAACAACTTACAGGGCGCTTTCTATGTAGATAAGGCTGGTGTCCACATGGGGGCCATCGATACCTTGACGATCGCATACCGATTGCAAAGTGGTTTCCACGTGATCCACACGATCACAAGATGAGTTTCCATACTGTATACCGCAATACTGAATACTTCCATACTGTTTACTGCAACAGTTTACTGCCATACTGTTTTCTGTCATACTGTATACTGCTATATTTACCACATGTTCCACATTATGGCACAACCTCAATATGAtcttgataatgataatgattatgatgatacgTTTTTCCAGAGGGAACATCTAAGTGGTGATATACTCATTAGAAagctaataaaaatatttaaatgtaAAAATTTACAAAAGCAAATTCGTTTTGGAAAAGCCATGTCGCCATTACCAAGTCTAGAGAAGAATAAAGCGCACAAAAGGCGTGGCAACAGTCCAAAgaaatgaaatataaataaagcAGAGTGAGTTTGAAATTCCGAGATGGACCTGTTTCCAGAATCCTCGTAGAAACTTCGTTCCATGGACGAGACTAGGGAGCTTTCGGCTGAGTGAAGGACCATTAGATACTTTAGGTTTGGGGGGCATTTTCATGGTTTTATGCTTGTTGATCTAATTGCTGGagttgttcttatttttgtagTCTGATTGTGGGGGAGTTGAAATACCTAgaatttctatatttttatatgttaAGGAAATGGGGGGTGTGGGATTCCACTCTAAAGGTtcactaaatgaaaatgacTCTATTCGCAGAAGCCCCATGGCTTTATTCTGACTCAACTTGTCTCAAGAGAGTATAATCATACCATTAAAACATAATATGGGTAAACTCtattaatgaaaaaaaaaacgcgcatAAATCTCCTTTTTATTTCCGTCTTTTTCTTCtgaataaaaagcaaaaacgtAAAGAAA

Protein

UniProt (Swiss-Prot top hit)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005206 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06398 all species →	Pex24p	Integral peroxisomal membrane peroxin	Family	Interproscan
PF01363 all species →	FYVE	FYVE zinc finger	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011011 all species →	Homologous_superfamily	Zinc finger, FYVE/PHD-type	Interproscan
IPR017455 all species →	Domain	Zinc finger, FYVE-related	Interproscan
IPR042405 all species →	Family	Protrudin	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR000306 all species →	Domain	FYVE zinc finger	Interproscan
IPR010482 all species →	Domain	Peroxin domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14543 all species →	PROTRUDIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016192 all species →	Biological Process	vesicle-mediated transport	Interproscan
GO:0043621 all species →	Molecular Function	obsolete protein self-association	Interproscan
GO:0071782 all species →	Cellular Component	endoplasmic reticulum tubular network	Interproscan
GO:0071787 all species →	Biological Process	endoplasmic reticulum tubular network formation	Interproscan
GO:0072659 all species →	Biological Process	protein localization to plasma membrane	Interproscan
GO:0046872 all species →	Molecular Function	metal ion binding	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
K19368	ZFYVE27; protrudin	-	Endocytosis	ko04144	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_032230997.2 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

40TPM > 0

16Conditions

15.0Max TPM

7.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	8.89	9.36
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	7.79	9.97
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	6.45	7.25
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	6.94	7.37
whole 6 week old aboral regenerate · regenerate uncut	3	3	6.76	7.71
whole 6 week old aboral regenerate · regenerate 4hpa	3	1	2.22	6.66
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	5.99	9.78
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	9.41	10.02
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	6.28	9.45
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	8.01	8.40
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	8.34	9.52
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	10.11	12.45
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	8.87	10.61
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	8.58	15.05
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	5.89	9.32
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	2.51	7.53

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	9.36
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	9.10
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	8.21
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	9.97
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	6.88
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	6.52
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	7.25
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	6.27
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	5.85
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	7.37
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	7.17
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	6.29
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	7.71
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	6.74
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	5.84
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	6.66
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	9.78
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	8.19
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	0.00
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	10.02
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	9.63
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	8.58
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	9.45
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	9.39
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	8.40
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	8.03
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	7.59
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	9.52
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	8.02
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	7.48
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	12.45
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	9.40
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	8.48
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	10.61
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	9.08
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	6.92
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	15.05
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	10.70
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	9.32
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	8.35
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	7.53
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.