Gene detail

Detailed information of XP_032237360.2 in Nematostella vectensis

Genomic Location: NC_064036.1:8871997...8888340
NR annotation: XP_032237358.2, plastin-1 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_032381469.2

ATGAGCTCGGCACGGCCCACTGCGTAGTCTTGCAGGTTGAAGAATACAACTGAAACTTTTCTTATTTCCTTCTGTTTTTTTGGTCCTTACTTTCGGCCAAAATGTCTGAACTCGAAGAACATGATTTTGAGCTGACAGAAGAGCAACTTGGAGATCTGAAAGAGAGTTTTGATGAGTTCGATGTCGACCACAATGGGCACATTACCGTCAAAGAGTTAGGAGCTGTATTCAGTGCTGCTGGTGCCGAGGTACCGGGGTATAAAGTCCGAGAAGTGATCTCTGAGTATGACAAAGATCAAAATGGTACCATCGAGTTCGACGAATTTGTTGCGATGTTCAAGAAGGTGACCGATAAGTATCGTGGCGCCATATTCAAATCATTACTATCTACCAATATGGGTGTCAAGCATTCTGGGGGGACATCAGAAAGTTCTGCTGAAGGAACAAAACACTCGCATTCCAAGGAAGAGCAAGTTGCATTTGCAGATTGGATCAATAGCTCACTGAAGGACGATGAGAGTGTCCATAAATACCTGCCTATTGATGCATCAGAGGACTCCTCTGACCTTTATGAAAAAGTAAAAGATGGAATCTTGCTATGCAAAATGATTAACCTGTCAGCGCCTGGCACTATTGATGAACGTGTCATCAACAAGCCGCCCTTGAAAGTGTTTACTATTCATGAGAACCAAACACTTGTCATAAACTCAGCCCTGGCCATTGGCTGCAATCTTGTGAATATTGGAGCAGGTGACTTAGCCGAGGGAAAGAAGCATTTGGTGCTAGGAGTTCTATGGCAAGTTATCAGGATTGGGCTTTTCTCAAAGATCACACTCACCAATGTCCCTGGTCTTGCTCGACTTTTGCAAGAAGGAGAAACAATTGAGGGTCTTCACCATCTCTCTCCTGAAGAACTGCTTCTCCGTTGGGTGAACTTCCACCTTGGCAAATATTATGATGGCCAAAACTACCCTCCAGATGATAGCCGGCGTAAGGTTGTGCACAATTTTTCTGATGACATTAAAgattctGAGGCTTATAGTATTTTACTTTACCAAATTGCTCCACAATCCAGTGGGGTTGATCACCCACAATCCTACTACTCAacCACAGACAATTCTAAGAAAGCTGAAAAGATGCTTAGAAATGCAGAAAAAATTGGCTGCAGGAAATTTGTTAGAGCCAAGGACGTGGTTTCTGGAAATCAGAAACTAAACATGGCATTTGTAGCCAACTTGTTCAGCACATTCCCTAACCTGCCAGAActggatgatgatgaaggcAAGGAAGTGGGCCTGGATGAAGAATACCAAGAAGAAACTAGAGAAGAGCTAACTTATCGCAACTGGATTAACAGTATGGGATGTGGCCGATATGTTAACTGGTTATATAGTGACTTCTTTGATGGAATAATTCTTTTTAAGATGTTTGAGCACATAAGACCTGGTTGTGTTGACTGGGAAAAGAAAGTGAACCCTGAGGGGAAATGTAAAAATGCAAGAATGGGAGGAAAGGTGAAGTGCATTGAGAACTGCAACTATGCTGTCGACCTTGGCAAGCAATTCAACTTCAGCTTGATTGGCATCCAAGGACAAGATATTCATGAAGGGGTTCAAAACCTGACTCTGGggttGATATGGCAGATGATGCGTGCCTACACATACACCCTACTTGCTCGCCTATCACCAGATGATGATCACATGACAGAAGAGAAGATTGTTGAGTGGGTCAATAAAACTTTACAAAGCAAGAAGAAGACACACTTGATTAATAAGGGTCACGGTTTCAAAGACCCTGACATTAGCACTAGTCTGGCCGTGCTTGATCTAATTGACTGCATTTCCCCGAAGATGATCAACCCTGCACTGATAAACCCAGACCCTCTCTCTGACGAGGACAAGCTGCCGAACGCACAGTACGCCATCAGCATGGCACGTAAAATTGGCGCTGTGGTTTACGCGTTGCCTGAAGACTTGGTAGAAGTTAAGCCTAAGATGGTACTGACAGTGTTTGCCAGTCTCATGCTCTGCGCCCTAGAGAAATCTTCAAAGAATAAGAAAGGTTGAACGCTGGTGATGATCTGTCCTTCTCTGGGATGTAATCACATGATGCCACATTCTCGTGCACAATAATTATGGCCGTGTCTTTGACATGATCATTTTTTCTGCTATGTCAAGATCAGTTAAATGTAGAGTCGTTTCACTTTGATATTAGGTGCTAATATATTCATTTGCCTGCGTATAAGAAAACATTTACATATTGTTCATGAGAAATAGGGAAGCATGCTTGAGAGTTgtatatttccttttttttttctcgcgcgTTTTCCTATAAATCCCACTGTCACACAAGGGGCTATTTGTGTACTTACGGTAAGAATACACACGTACTCTATTCACGAGGTGTTTAGTGGTTTACGGTTATGACAACGAAATTTTCAGAACCCTTAGCATAGTATTTTCTGCCTCTTTTCTAGAAGAATAATCTTTTAAGCAAggaaatattttcaaataatgGGTCGTACTTTATTAACAATGTTGTAAACAATTTGTAGAAAGCCACAAAAAGAGCAATAAAATAGttcaaataaa

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A6H742	Plastin-1 OS=Bos taurus OX=9913 GN=PLS1 PE=2 SV=1
Q6DG81	Plastin-3 OS=Danio rerio OX=7955 GN=pls3 PE=2 SV=1
Q3V0K9	Plastin-1 OS=Mus musculus OX=10090 GN=Pls1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001622 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13499 all species →	EF-hand_7	EF-hand domain pair	Domain	Interproscan
PF00307 all species →	CH	Calponin homology (CH) domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001715 all species →	Domain	Calponin homology domain	Interproscan
IPR002048 all species →	Domain	EF-hand domain	Interproscan
IPR036872 all species →	Homologous_superfamily	CH domain superfamily	Interproscan
IPR001589 all species →	Conserved_site	Actinin-type actin-binding domain, conserved site	Interproscan
IPR018247 all species →	Binding_site	EF-Hand 1, calcium-binding site	Interproscan
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan
IPR039959 all species →	Family	Fimbrin/Plastin	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19961 all species →	FIMBRIN/PLASTIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005884 all species →	Cellular Component	actin filament	Interproscan
GO:0032432 all species →	Cellular Component	actin filament bundle	Interproscan
GO:0051015 all species →	Molecular Function	actin filament binding	Interproscan
GO:0051017 all species →	Biological Process	actin filament bundle assembly	Interproscan
GO:0051639 all species →	Biological Process	actin filament network formation	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 XP_032237360.2.

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

Expression pattern (RNA-seq)

Transcript abundance of XP_032237360.2 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

47TPM > 0

16Conditions

107.1Max TPM

75.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	88.51	100.49
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	66.94	87.22
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	67.91	79.79
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	73.54	87.91
whole 6 week old aboral regenerate · regenerate uncut	3	3	63.89	71.23
whole 6 week old aboral regenerate · regenerate 4hpa	3	3	71.83	89.57
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	90.05	96.74
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	81.93	89.93
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	71.71	81.83
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	72.62	84.44
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	77.87	83.59
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	94.07	107.13
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	91.13	103.48
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	55.64	89.72
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	72.24	81.24
whole 6 week old aboral regenerate · regenerate 12hpa	3	3	68.81	83.45

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	100.49
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	90.46
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	74.59
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	87.22
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	60.57
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	53.02
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	79.79
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	65.43
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	58.53
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	87.91
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	70.71
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	62.01
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	71.23
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	63.62
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	56.82
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	89.57
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	63.30
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	62.62
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	96.74
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	89.88
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	83.52
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	89.93
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	87.67
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	68.18
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	81.83
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	71.27
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	62.04
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	84.44
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	67.68
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	65.75
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	83.59
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	82.85
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	67.18
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	107.13
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	92.69
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	82.39
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	103.48
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	88.74
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	81.18
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	89.72
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	77.21
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	81.24
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	76.75
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	58.74
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	83.45
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	74.16
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	48.83

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.