Gene detail

Detailed information of XP_001636897.2 in Nematostella vectensis

Genomic Location: NC_064045.1:3048241...3054560
NR annotation: XP_001636897.2, protein singed [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_001636847.3

GGCTATCGTATTTCACGGCTGAGCTCAATAGTTGCGTCCGGTTTCTGTGGTATTTCAGCTCACTCAGGCGGAAAAGAAAGTCCTTGTTCTGTATCGTCCGTGTATCCAAGTCAAATCCCTTCAGTCGTTCTTCGCTCTTGTCTGAAAAAATGGTCGAACCATCTAAGTGGAATATCGGTCTTATGAATGATAACTCGTCCAAGTATCTCACCGCTGAGACATTCGGATTTAAACTGAACTCGGATGGCGTTTCCCTTCGAAAGAAGCAGACATGGTCTCTTGAGCAAGTTGACGGGGAGGCGATCTATCTGAAGTCGCACTTGGGAAGGTATCTGACGGCGGATCCTAAAGGCAATTTGTGTTGCGAGGCGGAAGAAAGAGAGAGCAACGCAAAGTTTACAGTCGAGATAAAAGATGGGAAATGGGCACTGAAAAGCGTCCACGGCGCGTACTTTGGTGCGAACGGTGACCAACTAAAATGCGTGGCGAAAATCGGGAAAACGGAGTTATGGACAGTACATTTGGCCATGCACCCTCAGATAAACCTGAAGAGCGTTTTGCGCAAGCGATACGCGCATTTAGACGAAGAGGATAATGATGTGAAAGTATCCGAGCTGATCCCGTGGGGTGCTGATGCCACCATCACTTTGAAATTCTCGGGAGGAAGGTATTTTCTCGTCACGAGTAATGGCAAATACGTAAGTGCAAGCGGGGACTTACAGGACGAGCCTAATGATGATTGTTCGTTCTCCGTGGAGTTCCACCAGACAAGCATTgcatttagggatcacaaggGCAAATACTTGACGGCTGTTGGTACCGGTAAACTTCAGTCTAAGAAAGAAACCGCGGGCAAAGATGAGCTCTTTCAGTTGGAAGACAGTCATCCGCAGGTCTCCTTCATCGGTCACACAAACAAGAGGGTTTCCATAAAGCAACACACGGACCTCCGCGCCAATCAGATGGACATGGGAGACACCGAGATCTTCCAGCTCGAGTTCAACGAAGACGGCAAGACCGTGTCCCTGCTCGGTAACAACGGCATGTACTGGGTTGCCAATGGACCCGTCTCCGCCACCGAGAAGACCATCACCCCGAAAGCCCAGTTCACCATGGAATACCATAACAATCAAGTAGCGTTCAAGGCGCATACTGGGATGTACCTGACCTCAAACAAGCAGGGACAGCTACTCGACGGCACACCAGAGCTTGAGGAGGCCGGCAAGTTCTCCATGGAGATCGTCAATCGCCCGCTGTTGATCCTGAAAGGCGAGTTTGGGTTCATCGGGTGCAAGACCTCGACTAACCGCCTTGAATGTAACCGCGCCGCCTACGACGTCTTTACGCTGGAAGTGGAGGAAGCGGAGAGCGAAGAGGAACGAGGGACGTGGTATAAGATTGGATCTGAGAAGGGCAAGTACTGGCGCGTGGAGGGAGATGGGAGTATCTCGGTGTCTGGCGAGGCGAATAGCGCTGATCTGTTCGAGATTTTCCTGGAGCGCAGGAATTATCTGTGCATCAAGGCGAAGAACGGGGCGTACCTCAGAGGCCAGCAAAATGGAGTGTTCAACGCAAACGGAAAGAGCATCGCGAAGGACAGTCTTTGGGAATACTAGAAAGGAGGGGAGGTTGCCAGAGAAACGGCGTATACAATAACGCAAAGTAAGGTCTTGGGACACCTTAAATAGCTATAAATCACATGCCAAGAGGCAGGAGTGCCCAATAGTAAAATTACTTACTTGGACATAGATAGAATAAGGTATAAACGATTTCAAATTATTCCAGTGTCAAATGTAGGCTATGTCTTTAAATTAATGGATCATAAGGGTACATATCTTACTATCCGACTACTAGATaattatgtttattttctgtGATTATAACTCAAGAACAAAATAATACCCCTGTTTCGTATCtttcattatttttgttatatttttgtcCTCTTACAAAGAGAAACCTGAAGAATTCCGTAAATAGAGGTGTTTTGCTTGAAAGAAATCAATTGTTAGATCTTTTTTAATGTGAGTTAAATTATTTGTCTTAgaaatatttctaaaaaaaagtattattttCGTTATCAAATATTTTTGTGATTGCGATTATCTGCTCCTTTCActagtcacgtgatcatcaaaatccgaaatcttTAGTGTAGGGTATCAGATCAgagtttttttccttttttgtcgAATTAAGACCTGCAACAAATAACGTAAACAATTGTCAGATAAATTAAGGAACTCTCGATGTATTCGATATTACAATAGCGTAGTTATTGTAGAATGTTTCAATATCTCAGACTTATAAAAGAGACGAAGTTTGAATTGTGTTTTTAACCCTGTAACCATCACcttttaataattaaaatggaGCGAAAAATGAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q24524	Protein singed OS=Drosophila melanogaster OX=7227 GN=sn PE=1 SV=1
Q61553	Fascin OS=Mus musculus OX=10090 GN=Fscn1 PE=1 SV=4
Q16658	Fascin OS=Homo sapiens OX=9606 GN=FSCN1 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007494 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06268 all species →	Fascin	Fascin domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008999 all species →	Homologous_superfamily	Actin-crosslinking	Interproscan
IPR010431 all species →	Family	Fascin	Interproscan
IPR022768 all species →	Domain	Fascin domain	Interproscan
IPR024703 all species →	Family	Fascin, metazoans	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10551 all species →	FASCIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0007015 all species →	Biological Process	actin filament organization	Interproscan
GO:0007163 all species →	Biological Process	establishment or maintenance of cell polarity	Interproscan
GO:0015629 all species →	Cellular Component	actin cytoskeleton	Interproscan
GO:0016477 all species →	Biological Process	cell migration	Interproscan
GO:0051015 all species →	Molecular Function	actin filament binding	Interproscan
GO:0051017 all species →	Biological Process	actin filament bundle assembly	Interproscan
GO:0030674 all species →	Molecular Function	protein-macromolecule adaptor activity	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_001636897.2.

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

Expression pattern (RNA-seq)

Transcript abundance of XP_001636897.2 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

48TPM > 0

16Conditions

88.7Max TPM

38.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	38.24	39.67
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	27.24	37.31
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	18.19	22.57
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	33.40	44.67
whole 6 week old aboral regenerate · regenerate uncut	3	3	13.95	17.84
whole 6 week old aboral regenerate · regenerate 4hpa	3	3	38.05	58.62
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	36.80	41.10
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	43.00	48.54
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	44.96	51.88
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	46.39	53.91
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	48.52	55.74
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	56.41	88.68
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	43.29	47.79
whole 6 week old aboral regenerate · regenerate 48hpa	3	3	51.89	67.52
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	38.27	40.93
whole 6 week old aboral regenerate · regenerate 12hpa	3	3	35.50	50.89

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	39.67
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	39.62
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	35.44
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	37.31
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	22.27
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	22.14
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	22.57
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	17.08
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	14.91
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	44.67
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	31.69
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	23.85
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	17.84
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	12.92
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	11.09
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	58.62
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	30.46
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	25.07
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	41.10
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	40.05
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	29.24
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	48.54
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	43.07
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	37.38
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	51.88
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	43.46
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	39.54
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	53.91
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	52.59
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	32.65
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	55.74
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	49.29
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	40.55
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	88.68
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	42.37
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	38.20
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	47.79
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	44.51
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	37.59
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	67.52
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	51.49
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	36.65
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	40.93
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	38.71
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	35.16
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	50.89
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	29.58
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	26.02

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.