Gene detail

Detailed information of XP_032242883.2 in Nematostella vectensis

Genomic Location: NC_064036.1:1967473...1971106
NR annotation: XP_032242883.2, homeobox protein onecut [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032386992.2

TTTACGGACTCGAAAGTCGAAAGTTGTTTTTCCCCTTCTATAAATCGAGCTTAAATACTTATCTTTTTATTAGATATCTGCAATAAGATGTAGCTAATTTTCTCTGATCGTGAATTTTGTTTAGATGGATTATCTTTACTAGCGATCGCCTCAAAAGATTGGCCTGGTCGCAAAGCAGAGGTCGCAAAGCAGAGGTGTTGTGAGGAAGACTGGCTAAAATGGCGGCCTCTGCATGTTAGTAATTCCAGTTGCTGATAAAAATCAGTTTCTAAACCGCTATAACCGATCAAAGTCTAAGTTTTTGCTGTATTATATATTGAGTCGCTAACAGCTATGAGCGAAAGCTTGGAAAGCGGCTCACCAAGTCCCGAGATGTCCTCTCAAATAGCCGCCAACATGGAGGCCATAGAGCCATTACTCACTCTCGCTCTTGGAGCGTCTGAAGAAGTTAACACGAGCGCCAACTCTCGATGCAACATTATAGTCAGCCCTACTTTTCTGCAGAAAAATGCCGGAGGTGACAGTATAGCAAAGCCTACATTTATTAGAGTCAATTCAGGGGAAATATCGAACTTTTCCCAAATTCCAAATTTACAAACAACGATGACAACCACTGACAGCGTAGCACAACAGGTTCAAGATATGAATCCTGAACGAACCACTATGGTTGCACTTAACGCTGAGCAACTGCAGTACCTGCAGACCGAATCGATAACCAATGTTGGAAACCCAGAAACTGGAGACGGAGCCCCTCTTCATAGCTTTGTTGTGATAGAGCAATCAGTTTTGGATCAAATCAGCGGATTCTTGAAGAATTCGGCAGCATCGGTAACCACAATGGTAACAACAACATCCAATGAAGCTGCTACGAGTACTGTTAGTACTTCATCTAGCACTGAACACCCAGTTGAAGAAACCACTGATAATCAGCCTGTTGAATCCAGCGGTGACATTTATCCATCTGAGACAGCTAAAAACTGCCAGGCAGAAATGGCTGTAGCATCAGCAACTATATCTGATAATGAACAAACAAATAATGCTcctgatgatgacgatgactgGATTGACACGAAAGCTATGGCACTCAAGCTCACTGAAGAGCTACGGCGGTACCACATTCCTCAGGCTGTGTTTGCCAAAAAGGTACTCAATAGATCACAAGGGACTTTGAGTGATCTGCTTCGCAAGCCTAAGCCCTGGAATGAAATGCGTCTTGGGAAAGCTATATTCAAAAGGATGAAAGAGTGGCTGGAATTACCCGAAGTGAAAAGAATTCCTCAGCTGCGCATGGAAGCTGCAAAAGAACTAGACAGTCGGGCAAAACGATCAAATTCTGAAAGTGATGTAGAGGCTGCTCCCTCAAAAAAGATTCGACGGCAGTTTACAGAGACCCAGAAAAGAACGCTCTTTGCCATTTTCAAAGAGACTAAAAAACCTACCAAGGATATGCAGAAAGCAGTAGCTGAAGAATTAGGACTAGACTTGAACTCGGTTGCAAACTTCTTTATGAACGCCAGAAGAAGACACACTGATGCATAATGTAAGTAGAGATAGGTAAGATAGTTAGATACATGTACATAGGAAGCCATTTCCCCTTCCATTATCTATGAATGTTTTACACctgtgtgaaaaaaaaatagttttgctGACTTTTCTAGCCTAAGCCtgaaatgtcttttttttttctgataaagGCTAatgctagaaaaaaaaaactactctgttttcaCACAGGTGTAAAACATGCCATTTCAACCATGTGTTGAGATTTATTTCCCTCACTCCACCATGACAATGCAGATCACCTACCGTAggtattctacagcttgcctgtagtttttctagtcatgTATTTTATCTATTCTCGACCTGGCAAGTCATGACTGCTGTCTTGTTTTGTGCTTGTTGTGCAAGAGATGGTGAATCGCAGAGTTAATACCTGCAACCAGGCTAATATCTATTTGCCATTCTTATATTACAGGGGAATAGGTCAAGTTGATAAACAGACACATGCCGGGTTGATTCTAGGGGAATCAATTCGACATGGTGTCATAGACATGGGGTGATGTAATACTGAATGAAAGCTAGAAAATGGCAGGTTTTGGCAATTCTGCTTCAGGATTATCTTAGAGTCACATCAACATTGGCCAACATTGCTGCTGTTTACTTATCAACTTGACCCTAGCCCCTGTACAACCTAAGAATGGCGAATATGTTAATAACACTTTGTGCAATTCAAGTTAAAATAATTATCAAGCTCTCCATTTTAtcaaaaaatctcaaaatctATTTATTCAAAACCACACAAAATCCCCAATTACGAAAGTCATGTTCTTGAACCAGAATGATGaatataatacaccaaaaactgttTGATTCCTTATATTTGAATATTCTCGTTCTTCCAAGAAATGCTACGATGTGAATGGAAGATTGAAGTTTCTGCAAACATGCACTGGTGATTGGTTGTAAGACATGTATGGCAAAGTACTTACAGTAAAGTTGAACTCACATAACCAGGGATAGTTGGGACTGGTTATTATCAATCATACAAGAAATCCATCCAAAGCAACTGAGGTTTTATAGAATTATTAGACTAAGAGGAAATTAGGCCTGTATATACCAGTATCCCTTTTATGCATTCTCTACTGTGTGTCCCAAAAAGCTCATATTTTACACGAAGAATACAGTCAACTCTTAGTATTATTGCCACTCTAGTACTAATAATACTTTGTCTTGTCCACCTCATTCCATGTAGTCTCATGGTTAGGACTATAACTTACCAATGGTTCTTGTGAATAGTGTATAATACAGAGGGAATATGTTTCCATCGTATCCAAATGCATATTGTCTACATCAACAAAATAATTGAGATTCAGCCTTAAATACTCCATGTGCCCTTTTTATCCTTCTTTATAACCTAATATACAGTATCAGGTGAAGAGACCCTTTGGACGTAAATACTCCATGTGCCCTTTTCATCCTTCTTTATAACCTAATATACAATATCCTTCTTTATAACCTAATATTCAGGTGAAGAGTCCCTTTGGAAGTTTTTGGAGTGCCCAGTTAAAAAACCTTGGATCGAAAGCTAAATCTAAAAACATCCACCTTTCTAACTGTAAATTCCAGCAGTTTTCTGAAATAATAACATGAGATTTGAATCTGAGTTATGTAGATAACTGTTTTGAACGAAGTTTACGGTTTTGTtcattatatttaaaaaaaatattatacggC

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8K557	One cut domain family member 3 OS=Mus musculus OX=10090 GN=Onecut3 PE=1 SV=2
O95948	One cut domain family member 2 OS=Homo sapiens OX=9606 GN=ONECUT2 PE=1 SV=2
Q6XBJ3	One cut domain family member 2 OS=Mus musculus OX=10090 GN=Onecut2 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006911 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00046 all species →	Homeodomain	Homeodomain	Domain	Interproscan
PF02376 all species →	CUT	CUT domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001356 all species →	Domain	Homeobox domain	Interproscan
IPR003350 all species →	Domain	CUT domain	Interproscan
IPR010982 all species →	Homologous_superfamily	Lambda repressor-like, DNA-binding domain superfamily	Interproscan
IPR051649 all species →	Family	CUT Homeobox Domain-Containing Protein	Interproscan
IPR009057 all species →	Homologous_superfamily	Homeobox-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14057 all species →	TRANSCRIPTION FACTOR ONECUT	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
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:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	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
K08026	ONECUT1, HNF6; one cut domain, family member 1 (hepatocyte nuclear factor 6)	-	Transcription factors	ko03000	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_032242883.2 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

37TPM > 0

16Conditions

6.7Max TPM

2.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	2	2.51	3.88
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	3.17	4.24
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	3.26	3.56
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	3.08	3.52
whole 6 week old aboral regenerate · regenerate uncut	3	3	2.79	3.52
whole 6 week old aboral regenerate · regenerate 4hpa	3	1	0.98	2.94
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	2.57	4.07
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	4.62	6.66
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	2.51	4.21
whole 6 week old aboral regenerate · regenerate 20hpa	3	2	1.96	3.09
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	3.25	3.69
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	3.98	5.20
whole 6 week old aboral regenerate · regenerate 60hpa	3	2	2.81	4.40
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	2.67	4.75
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	2.28	4.28
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	1.10	3.31

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	3.88
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	3.63
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	0.00
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	4.24
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	2.83
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	2.43
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	3.56
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	3.44
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	2.78
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	3.52
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	3.25
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	2.48
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	3.52
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	2.50
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	2.35
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	2.94
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	4.07
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	3.64
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	6.66
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	3.65
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	3.55
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	4.21
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	3.31
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	3.09
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	2.80
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	0.00
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	3.69
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	3.67
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	2.40
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	5.20
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	3.52
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	3.23
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	4.40
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	4.03
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	0.00
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	4.75
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	3.25
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	4.28
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	2.57
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	3.31
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.