Gene detail

Detailed information of XP_001629014.3 in Nematostella vectensis

Genomic Location: NC_064045.1:9679334...9688354
NR annotation: XP_001629014.3, forkhead box protein K1 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_001628964.3

ATGTTTCTcctcgtgttgttgttttgctttCCACTGATTTCTTGTTCGATTCACTTGCGCAGCGAccaaaaaaactgcaaaatCTCGGCACAAAAAGCATGTCTTCACCTAATAGAGACCCTGAAAGTGATGCCCTAGCTCTTCTAGCGCTTAAAGCAAGTAAACCCTCAGTCAACAGGCCGATGTGGTCTCCGGTCAACACAGTTACTCCCATCGCAAAACTTGAAGGCCGCGAGTTCGAGTACCTCGTACGCCAAAACAGAATTATTATCGGGAGAAACAGCAGTTTGGGAAGCGTGGATGTCAACATGGGTCACTCCAGCTTTGTTTCCAGAAGGCATTTGGAAATCAAATTTGATtcgccgagcttttatttgtCGTGCAACGGTAAAAATGGGATATTTGTCGATGGAGTTTTCCAACGTCGAGCAGCACCTCCTATGAAACTACCATCCAGCTGTGTTTTGAGGTTCCCCTCTACTAACGTAAAAATTCGATTCACGTCGTTGGTGACAGAAAACACACCGCGCCGAGTTCCAAGTCCGCCAAAATCTAAACTACTTGCACCGCTAAAAATCAATATTCCCGACCATGATGCGCCTATGTCTTCCCCACTTCCTTCTCCTACGGGCACTATAAGTGTCCCAAACTCCTGCCCAGCAAGTCCTAGCAATCGTGACACCCACTTTGAGTCCAACTTACACGCCGTGGCCGAATATGCAGTCCAGGCTGCCTCTTCCGCTGGGTCTAGTGTGTCATGTGACAAGTCCAGCACAAGCAGCGAGGGTGGAAAAAGTGAGGATGGCAAGCCCCCCTACTCCTACGCCCAGCTGATTGTCCAGGCCATTCTGTCCGCAACTGATAAACAGCTGACTTTGAGTGGCATTTACGCCCACATCACAAAGAACTACCCTTATTATCGCACTGCAGACAAAGGGTGGCAGAACTCCATCCGTCACAACTTGTCTCTGAATCGGTACTTTGTCAAGGTACCGCGGGCACAGGATGAGCCAGGCAAAGGCTCTTTCTGGAGGATTGACCCGTCTTGTGAGCAGAAACTTGCGGAACAGGCATTCAGAAAGAGAAGGCAACGTGGTGTACCTTGTTTCAGGCCTCCATTCGGAACTGTTGCTGCCTGCAGGTCTGCACCTGTGTCACCAACACATGGACTCCGCCTTCCTCCCCCCTCaaccccacccacccctcactCTAGAGAGAGCTCGCCTACCCATAACATGCCGCAACCTGAAGCGCCCAGTAGCAATCTGtctaccaacaacaacaacaacaacgccAGCATATCTGCCTCACCACAACGCCAGTCTCCCAACACGCCGCAAAATACCCAGTCGATGCAGCAAAAGTTTGCCTTCCACAACATCTCCACTACTAAAGCTCTCCCAGCCTCTGCATTCCCAGTTAGTGTGATCAAGTCAGCTGGGGAGCCAGTGCGCTATTCTGACGGAAACGATGGGGAGAAGAATGGGCTCTCTCAGTCGTCATCTGAGGACTCACCCGGATGCAGTCCTAAGACAGTGGTGAAGGACCCTTCAGATGTCAAGCCTGTTATCACCTCTGCTGGTGAAGTGCTAGCAATGAAGGTCCCTACTTCTTTTGGAGTCAACATAAGTGCCGCTGGTGTATTGACTCCAGCACCTACACCTACCAATGTCTCGCCAACTGGCCACGAGCCACCTCCAAAACACACCCTACCTAAACTGCCAACGCCCATCATGGTCAGCAATATTGCCGCCTTGACTCCCGAGTCATCACCATTGGGCGTCCTGTCGCCGTCAGCTACTACAGCTGCTGTCACCATGGTGATGAGCAATGCCAAACGCATACTGACCACCTCGCAAGCTATGGATGGGAGCAGTGAGCCTGATATCAAGAGAGTGAAGACGGAATGCCAACAGGTTGGCAGTGAGAGCACAGGAAAATAAACCACACCTATTGAATATATCCATTGATATATCTATTAAAACCTTATGTTACGGGATTGAGACATTGGACGTTTATGAACTGTGCCGCATCAGTTTCAGTAAGGATATTATGCGGTTTGTGAAATCTTAAGAAGAACCCGTTTTCTAGGGACTGTGTAATACCATAAGACATTGGGTAGAGCATGATGTCCGTCCAGTGCGATACAGAGTGATTCTGAATGTAATTGAAGATTCCCCTGGCTGGCTAACAATGGTATTAGATTGTGCCATCAGAACTTGATGCAGGTCAGAGAAAGCTGCGGGAAAAGCGTCATATGAAGGATGATTTAGGTACTGCAGTGGGCTGCACGGCATAGCCTGTGCAAGCTTGACTGAGCCGCCTTGAGGATCAAAACACAACCTGAAACCATTCCATTGAGTGGTTGACAGCAGGCTGTTGATATAAATTTCCTACGTTTAGTAGGGGTGACTGTGTGTATACCTTGTTAAGGTAATATGAACGCAATTCGCATCTCAAGTAGAATATTATTTAGTTTAATCGTCTGAATAAGTTGTTTAAAAGAGAGGTAATGTAAGCTTGTTTCTGGGCATTTAATCAAGTGGTAATCGTGTGTCACAGGGGAAGATGTAATTTAATGTTTGATAGTCAAATTAGGAGTCTAAGGGGAGTCTTTTCATGGTTATTCCATCTTGCACCTTTTTGCCACAAATAAGTCATACTTCGGCAGTCAAAGGGTGTGTTAATGGTTGCTTGGAAAAATCATTTCGTCCTCTACCCAGCACTGCTTTGGGTGCTAATTCGACAAATGAAAACCGTTTACCACATTCCTGGGCTGCTTGTTCTTCTTGTACATCCCTACGGTAGAAAGTCTGGAAAAATTGCAATAATTTGAATGCAGGTTTCCTCGACTTCTACTGATTAAAACAACGTGATACATCCTGGCAAGGATTAGTTGGTCTTGTCGCTcgataaattttattttatttaatccCAACCTCGTTCCTAGGGCATTTCCGTGGATATCTATCAATAAGAGGATTAATCTAATAGCATGTAAAAGTCACAGTTTTGACACAGACTTCATAACCAGGGAAGCAGGTTAACACTAATCAAGGGATAAATGAGGTTGTTATCCAATAAAATGTCTCATCACCATATTTATCCCTGGATaagcgctaacctgcttttTAGGAACCGGGCCCAGGAGAGCATTCCGCCCTGCTCTGATATGCTTTCAAGCATGGCTTTCCCCTGCTACCTGCTAGTTGTTGCCTAGTTGAGTGTGAAGGTGGCCACACTAGATCGTGTTGCACTGCAACAGCTCATTCGACAAACTtctgccattttgtcatcaccAACTTGAAATGAAATGATGAATGATTTTATGTAGTTTAATTGCTGGACAGCTAAGTTGGTGCTTTTGATAGAAATGAAACTAAATTATATTGTAGTATATATGAACAATGTGTAGTGTGCTTAGCTTAAAGCTATTTGAGAATGACTCAAGACAGGTTGTAACTTTTTTGAATGATTTTGTAGTTTGTGCCTGACGTCTAGTAGCTCAACATATCTATGCATTTTGCGTTATATCAACGAAGAAACAATAATCAGTTTTCTGTAAACGTGAAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P42128	Forkhead box protein K1 OS=Mus musculus OX=10090 GN=Foxk1 PE=1 SV=2
P85037	Forkhead box protein K1 OS=Homo sapiens OX=9606 GN=FOXK1 PE=1 SV=1
Q7ZX03	Forkhead box protein K2 OS=Xenopus laevis OX=8355 GN=foxk2 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007791 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00250 all species →	Forkhead	Forkhead domain	Domain	Interproscan
PF00498 all species →	FHA	FHA domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001766 all species →	Domain	Fork head domain	Interproscan
IPR036390 all species →	Homologous_superfamily	Winged helix DNA-binding domain superfamily	Interproscan
IPR018122 all species →	Conserved_site	Fork head domain conserved site1	Interproscan
IPR000253 all species →	Domain	Forkhead-associated (FHA) domain	Interproscan
IPR008984 all species →	Homologous_superfamily	SMAD/FHA domain superfamily	Interproscan
IPR036388 all species →	Homologous_superfamily	Winged helix-like DNA-binding domain superfamily	Interproscan
IPR030456 all species →	Conserved_site	Fork head domain conserved site 2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45881 all species →	CHECKPOINT SUPPRESSOR 1-LIKE, ISOFORM A-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000978 all species →	Molecular Function	RNA polymerase II cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0043565 all species →	Molecular Function	sequence-specific DNA binding	Interproscan
GO:0005515 all species →	Molecular Function	protein 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
K09404	FOXK; forkhead box protein K	-	Chromosome and associated proteins	ko03036	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_001629014.3 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

44TPM > 0

16Conditions

36.8Max TPM

21.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	24.15	30.58
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	18.29	24.74
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	19.90	22.58
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	22.50	24.22
whole 6 week old aboral regenerate · regenerate uncut	3	3	19.78	20.93
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	16.50	28.84
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	22.47	25.41
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	25.15	30.47
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	23.12	25.41
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	26.97	30.32
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	22.21	23.45
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	26.80	36.85
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	23.42	29.18
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	16.97	26.60
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	16.73	25.85
whole 6 week old aboral regenerate · regenerate 12hpa	3	2	15.17	24.15

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	30.58
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	22.44
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	19.44
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	24.74
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	15.13
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	15.00
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	22.58
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	19.65
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	17.47
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	24.22
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	22.30
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	20.98
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	20.93
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	19.45
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	18.97
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	28.84
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	20.66
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	25.41
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	21.81
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	20.19
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	30.47
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	24.90
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	20.09
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	25.41
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	23.24
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	20.71
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	30.32
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	25.86
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	24.74
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	23.45
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	21.77
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	21.41
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	36.85
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	24.46
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	19.10
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	29.18
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	20.63
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	20.47
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	26.60
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	24.32
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	25.85
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	24.33
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	24.15
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	21.35
SRR6320878	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.