Gene detail

Detailed information of XP_032236237.2 in Nematostella vectensis

Genomic Location: NC_064034.1:16108749...16113107
NR annotation: XP_032236237.2, YY1-associated factor 2 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032380346.2

TCGGAGGGGGTCTGGGATTGGGTGGTGTGTGATTGGCTCGAAGATTGCCGGGCCACAGACATCAACTCTTGCTTGCTTTCACGGGCTCTGCATGGCACTGCCAATATCATCGAGTTCTTCGAGATATGGAAGAAAAAGGTGACAAGAGAAGTCCAAGCAAATTGAAATATAAACCTGTAAGGCAGATATCTGAAGAAGCTTACTGGGATTGTAGTGTCTGTACATATAGGAACACATCTGAAGCTTTTAAATGTTCTATGTGTGACGTGAGAAAAGGCACATCTACAAGGAAACCTAGAATAAATGCACATCTTGTAGCTCAACAAGTAGCACACAAGTACATACCAAACATTCCAGGTCTGAAAAAAGCTCCTAGCAAAAGACCTTTAAAGAAAATGAGGCCAAGACTACAGAATGTTGATCGTAGCAGTGCCCAGCACATGGCTGTCACAGTAGGGAATGTTACTGTTATTATAACAGACTATAAACTCTTGAAACCTGAACATACTTCTTCATGCAGTCCTGATAGAAATAGTCCAGGCCTTTCTGAAGGAAGCTACGAAGCAGGGCCATCCACCACACCCACTGAATACATTGGAAATGGTGCAAGCCATGATGAGAGCACATGACATGCACATGTCTAAAAAGAGAGTGTGACATTTGATAGACTATCTTCCAATTTTAGCTGATGCAATCTGCTATTTCATAACTTGTATGGCCAAGAGCCTGTTTTTGGGGCTACAAAGACTGGAAAAAAtgagcttttgtaaaaaaaaaaagatatccCTCTACATCACAAGCAGCTCTTTCATTCAGTGAAGGAAAAAACTAGTTCAAAGGGAGACAGGGCAAGACGAGTTGGTGATCTCAATATAATGTCACGTCATCACTACAAAACTCTGGATCTGGCTCAAAACTTATTTCAGTTTTATTTTGAACACTCACCTACAATTTTAGAAAATTATCAATGGATTAATGGATTAATATGCCTATTTATAAGGCTGTTCATGAGACATTTCCCATTTTCTAAATATCCCAAAAGAGGGGGGCGCCTGAGCTCTCCCTTTGCTAAGTCCCTCTCTTCAGTTCTTATAAGAGATTTTAactttttctgtatttttgtcATTCATTTTAAGGTAAATTTGCTAAAGTTGTTTTTATACACAGGTctttttgatgtttttattttttgtatataaaAAAGCTTGCATTTTATTTGTGTGCATCACTTCAAAATCTTGGATAATAGTATATGTGGAAATGGCAAAGAatcaatgtaaaaaaaattgtctacAAAGATCTCTGTTCAGAATGTCAaagtatttttcattttttttttttttaattttaacaaAATATCTCTGGTATTTTTATGCCTCCATATAAATTTTAGAAAATAGAAATTAAATCCTTGTGTGTTTGGTAGCTATTTAAATAGACATCCCTTTACACATGCCTTTTAAATTAGTAAGGGATCTTGTAAAGTTAAACAAAtccaaaaattataaaaaaatcgcCCACTCACTGCCTATCGCATTTTGTTTTATGATCCACTTCCGAAATTCTGACTTTTTGGAATCTTTTTAACTTTGGAAGATCTTTCGAAGAAAATTGACAAATGTAATGAATTTTCTGCTAGCTACAGTACAACAGTGGTTAGTGTGGCCATCTTGACAACTTGTAGTGAATCAATGAGCGACGAGGCAAAGAAAAGCTCATCATACCAttgtgtcaatcaaaacagCCATTCTCTCCTGCTTATTGGCTAACTTTCTACGTTGTATAATATTAGTACCTCATAAATTGAATTTATACTTGAGAACTCAATCGTCTTTTATGATTATATTAATAACGGTAAAAGTTtgttctcactaggacgcaagTGGAAGTGCAAACTGAAGCGcaaagtgagaatcggtcaaacacaagcacaaaaaatcaagcagtCTCATTCTCTTGCACTTATGTTAtagtgagaatcggaaaactATGTGGGTTCCCCTTGCGCTTACttccaagtgagaaccaaccttaaaagaattactcaacaagCATTTATATGTATAGACcacttatttgttttgtttttttccactGGATAATATTGGTCTCCAAGAGATTATAAGATCATTGTAAAATAGACAAAGTTTTAAAGGCTTCAAGCTGTGGCTAACCCAAgtgcaataaaataaatatgctATGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q99LW6	YY1-associated factor 2 OS=Mus musculus OX=10090 GN=Yaf2 PE=1 SV=1
Q8IY57	YY1-associated factor 2 OS=Homo sapiens OX=9606 GN=YAF2 PE=1 SV=3
Q8N488	RING1 and YY1-binding protein OS=Homo sapiens OX=9606 GN=RYBP PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006392 (this species only)
Ubiquitin family	UBD\|ZnF\|NZF · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00641 all species →	zf-RanBP	Zn-finger in Ran binding protein and others	Domain	Interproscan
PF17219 all species →	YAF2_RYBP	Yaf2/RYBP C-terminal binding motif	Motif	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001876 all species →	Domain	Zinc finger, RanBP2-type	Interproscan
IPR036443 all species →	Homologous_superfamily	Zinc finger, RanBP2-type superfamily	Interproscan
IPR039958 all species →	Family	RING1 and YY1-binding protein/YY1-associated factor 2	Interproscan
IPR033774 all species →	Conserved_site	Yaf2/RYBP C-terminal binding motif	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12920 all species →	RYBP AND YAF2-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003712 all species →	Molecular Function	transcription coregulator activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0045893 all species →	Biological Process	positive regulation of DNA-templated transcription	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
K11468	YAF2; YY1-associated factor 2	-	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_032236237.2 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

41TPM > 0

16Conditions

28.0Max TPM

7.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	6.68	7.86
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	5.69	8.35
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	7.77	9.18
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	6.50	7.37
whole 6 week old aboral regenerate · regenerate uncut	3	3	6.02	7.87
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	5.33	10.07
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	5.16	7.85
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	9.57	11.51
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	5.67	9.24
whole 6 week old aboral regenerate · regenerate 20hpa	3	2	4.34	6.64
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	6.39	7.22
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	15.28	28.02
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	11.89	19.38
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	6.97	10.92
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	6.08	8.67
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	2.23	6.70

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	7.86
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	7.79
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	4.38
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	8.35
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	4.40
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	4.31
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	9.18
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	7.12
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	7.02
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	7.37
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	6.65
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	5.47
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	7.87
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	5.86
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	4.32
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	10.07
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	5.93
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	7.85
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	7.63
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	11.51
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	8.64
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	8.56
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	9.24
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	7.78
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	6.64
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	6.39
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	7.22
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	6.11
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	5.83
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	28.02
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	8.93
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	8.89
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	19.38
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	9.01
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	7.30
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	10.92
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	9.98
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	8.67
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	5.58
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	4.00
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	6.70
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.