Gene detail

Detailed information of XP_048576567.1 in Nematostella vectensis

Genomic Location: NC_064046.1:2493721...2508597
NR annotation: XP_048576567.1, F-box only protein 15 isoform X4 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_048720610.1

CAATGTACATTTGTTGATGTTCGAAAATTATAACAAATCATTTTTCGAAGTTTGCGATAACTATTTACTTAAAGATCTTGATTATAATGTGACCATTTGGTTGGGAAAAATAGGGTTAATAGCCCCACTCGTTCTCTTACTCGTCCCAGGCAACCTCAGCAAAATagcaacaaaatggcggcaaaaCAAGAACGTACTGACAGATATGCGACGACTTTGACAGTCCAGAACTTCTAGCTGCAAGAGTATATGAGAATATGGCGAGCAAGCAAAGACATCAGAAGCATTTGTCCACTTATCTCAAGTCAAAAAAAGAAAGCCCGGATAAAAGGACCCAAACAAATTGGGTATTCTTATCTCAGGACCAAGTCAACACCATCTAAATCACAAAAGAACCCGCAAGCTACTTTTCGATCCAACCAGAGATCCACTCTCAGCAAGGCCAAGGGTGGTCAAGATTGCATGTTTGAAAGGCTTCCGGATGAGCTCCTTTTAGGCATTTTCAAGTTTCTCAGTCCCTCAGAATTGCTGAAATGTGCTCAAGTCTGTCGGCATTGGTCACAGTTAACTACAGAAAGCTGTCTATGGGAGAACATCTTTCTTAAAGTCCCACTAGGTGTGCGGCAGTTGTTCAGCTTTGAAGAGACAAAGGAAGAGGGGTTTAACTGGAAAAAGGAAGTGATCAAAAGGTGTATAACAGCCAGGAACAACATGGTATTGAAACCCAGAAAAGAGCAGCGACCAAGGGTGTATCAGGGAAAACCTGGACTGCAGGGTCATTTAGCGTTTCTGTCAGTCAAATGGAAGCTCTGTTTCATGGACACTAATGGAAATGACCACTGGGTGTCAGTTGGGCGAATGTTGTATCACCGTCACTCTGTCTCTGTACACTGGGGATCAGTTACCCTTCCTCCGCTACAAAGACTGAAAAACTTAAGGGTGTATGCCTTTGTGCCGGTGTTTTATAACAAGGAGTGGGTTCCTCACAAAAATAGtgCAACCACAAGATCCTTAATTCTTCAATATGACATGAAGTTAAAAGAAAACATTGTTGAGCAAAAAAGTGCCCTTACAGATGATGATTTGGTTACCTTGCACAACCTCCCCAATGGGACAACCATAGGGTGCTGGAAGGCATCATGGAAAGGCGGTGGTGAAATTGCATTTGTTACTGTGAATTTACCACACCATAAGCTGGCTCGCAGGATTCTCCTTGGTTCATCCTCTCAAGTCTGCCGAATAGCGCCCCATGTACCTGTCCTAGATGATATTGATCCAAGATACGGTCTCCATGGTTACACGGCCGAGCTCATGCTAAGGACTGAAAATATGACCTTTTTGGAGCACCACTTTCGTGATTTAAGAGATGGGTATGTCACTGGAGATGAGGTGATTTTCACAAGTTTTAATAATGAGGTGTGCAGACTTCATGGTGAGACACTTTGGTTGCCATGGAAAACTGAGCTCTTTAAGGGGACTTTAAAGGACTCTTGCATATTGGATTTAGTCTTCAAGGACGAACACAAGAAAAACATGTGGTCTGTCAGGGACAAACCTGGGGATTGGTCAGGCTGGTTGTAcacaaaaattcaaatttaaggtcttggtaaaggtaaatttgacactactgtttgtttttgtggtttttgcaaaacctgtatcaaAAGTTCTTAAACTtcatttttgcaaaaaaatgtttctccATAAATCGCATTCTTAGACGGCTAAAATGGGCCTTTGCTGTTTAGCATGACCTGTTGACTGTGAATTTACGCCAGATCTTTTACTTTTCTAGCGTATTTTTTTAAGGCAAGAACTCAAGTTTGTCGGGGGTAACCTCGCAACGGGTTTTAAGATCACAGTGcctacttgcacggcttccagtaaaggaggaaaaaaatctagctgcacggctgtctcccattttctcgatttttagtCTAAACCATATAACAGCCGTGcacggagaaaaaaaaattagatgcactgcccttttttcttttcgccaTTTTAAGCCAAAATTAAAAGTCCTGACTTTAAAAACCTCCAACTGTTATTTAGAACCGTCAAGCGATGGCTTCGAGCTTAAAAATTTTTGGCAAAAGCTGACATGCGAATGCTCGGCACATAATAAACGAAGCGTGGAATTCGACACTTAGCCGAAAATGCcctttctgttaaaaatcctggctaagCCGCTGCATACCGCTCCTGGCATAAAGCTCCTCTGCTCCATAGTTCTTCACCTAAGGGTTCCTTAGGTTCCCTAAGCACCAACTGCTGATTAATTTCTCCATGTTAAGAGACAGCTGAGCATATTTTCTCACTTATGACAAATTCCTTTAGGAACAGCCCTCCTGCCATATCACCAGCACACTAACAACAGAGTCCCTTCTTTATTGTACAGTATGCCACATCTAGCATCCCCTTCCACTAAGCCTCCCCCTTCCACTACAACAACCTACACAACACCAGAATTGACACCATTATATTTCCATCCTAACTTGTACATAAACCATCACTTAGGGGCGGAGAATTCCAGAAGTATTGAGCCATTTTTCATACAAGTTTTCACAAGGGGGGCCATCAACCCTCCTCTTTTCAGATCAGTGCATGGTATCGAAACAGGTAAATATATGTATAAGAAAGCTATTTTCCCTAACATTCCATCAATTTTTACCATTTTAGAAGTCTAGAAAAGTCACCCAGTCCTGTAATTGTCTCTGAATTTGCCTTGAGCCCCCACTTTCTTAGGCCAGCTCCGCCTGCCAGCTCCCGGGTTGAGAGGTGTAGAAGTCTGCTCGTAAGGCCTAACAGGATTGACTGGAttacctcattgttctattgtattcatgttctattgttttgtctgtggtgCCTCAAACCAATCAGGTGAAATCTTCTGATAGCTTCTACATGACCCCCCTGGTAAGGTGTAGGATAGCAGagtgggtgtggtcaacagaaatttgAACCCCTTAGAGACAGCAAATCAGGGTCTAGTCACAGggtttttcttaaaattttcTAGACCTAGTTGTTCTTTATTTCACatagtttattattattattaaatgtCCAAATGATATTCAGTTAGCAAACCAATTTATTTCTTGTCCACAAACAGTATAAAACATGCAAGAGTATGTAGACCTATGAAAAGGTCTTAAAGTATAGGGATAGGGCAagcattatcattattattattattattaccatttttattattattattcatttaTATTTTCACAAATGAAATAGAGAGTCCCAAAGAAATGCTGCTTGCAAACAACTAatgataatagtaataatgataataataatgataataataatgatattgatAATAAAAGCTGGTTTGTGATTGACAGTAATTTCGTGTAACAATGTttgatcatatggaaaccactttgCATTATTGGGATTGGTTGTGGTCGCACAGTAAAATAAGCTGCAATCGTGGACAATCAAGGGAGATCATATGgggaacaaacaaacaagcaaaatagataaaaaacaAAGTAAACCTAATTAGAGAGAAATGCAATATCATATTATGGGTATAAATatgtaaataaaacaaatttgatTAAGTAAATAAATCAGGGCCgcagcagggggtggggcacaaggaaatgaccagtaggggtgtggctatGTCCCCCTAATAttatcttaatgtttctgtattgtccccaccccccccctcccccccccccccgccaacATTTTGAGGCGTGCTACAGCCATGTAGATTATTTAATAAACGgaagaataagaataaaaaaatggtataGATTCTGGCTAAAAAAGTAAGAAATACCCTTTTCAATGCAATTCGtcaacctcccctcccccaaagcTTTGCTCAacttgttttgttgttatgtTCTATTATGTTTTGTTGGGCCTTAGAAATTTATTgctgtgtttatatttttactgATCCTTTAGAAACGATTCTTCACAATTTAGAtgttcaatattttgattttagATTGAGTTTTTTTAAGCGAACCGGATATTTATGTGACAGCCGTGCATCTAGCGTTTCCAAGAGCTTATGGAGCTCTTGCACGGCCTCTTTTGGATTGGCGGGATTTTTGATTTATAGAGTGGTAGTGATGGCTATCGTCCA

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)	OG0004391 (this species only)
Ubiquitin family	E3\|E3 adaptor Cullin RING\|F-box · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12937 all species →	F-box-like	F-box-like	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001810 all species →	Domain	F-box domain	Interproscan
IPR036047 all species →	Homologous_superfamily	F-box-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46731 all species →	F-BOX ONLY PROTEIN 15	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0019005 all species →	Cellular Component	SCF ubiquitin ligase 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
K10298	FBXO15; F-box protein 15	-	Ubiquitin system	ko04121	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_048576567.1 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

26.8Max TPM

10.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	12.53	14.91
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	11.86	13.48
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	10.65	11.37
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	11.85	11.99
whole 6 week old aboral regenerate · regenerate uncut	3	3	10.66	11.80
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	12.20	26.77
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	17.71	24.46
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	11.90	12.86
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	6.25	9.90
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	11.27	14.50
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	9.50	10.33
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	9.26	14.59
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	13.29	13.78
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	7.77	13.99
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	8.74	12.37
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	3.45	10.36

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	14.91
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	13.47
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	9.21
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	13.48
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	12.73
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	9.35
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	11.37
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	10.46
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	10.13
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	11.99
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	11.80
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	11.77
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	11.80
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	11.36
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	8.84
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	26.77
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	9.84
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	24.46
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	15.37
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	13.32
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	12.86
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	12.10
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	10.75
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	9.90
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	8.84
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	14.50
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	9.72
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	9.59
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	10.33
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	10.17
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	8.00
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	14.59
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	13.19
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	0.00
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	13.78
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	13.14
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	12.96
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	13.99
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	9.32
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	12.37
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	9.79
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	4.04
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	10.36
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.