Gene detail

Detailed information of XP_032243135.2 in Nematostella vectensis

Genomic Location: NC_064034.1:4191878...4201342
NR annotation: XP_032243135.2, zinc finger C3HC-type protein 1-like [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032387244.2

CGGCGATGACGTTTGGCAGCGGTGTTGATAGGTCTaagaaatccaagatggcggcatgTGTAGCTGGCACACCTCGAAGAGTCAAGTCCCTTTTGTCGAGTTTCCTGCATTCTCCTTCTACAAACGACCACCAGAGtaaagaaaaagaagagacAGACGCTGGTTGCGAAGAAAAGAGTGGAATGTACAAACAACGAGGAAGAGATGCTTTTTGGAACCGCGTAGAGACTTTCTCTCCTTTCACTTGGTTTGCCAAACCTATGGAGCTCTCACCTCTGCACTGTGCCTTATATGGCTGGGAAAATGCTGATGTAGATATACTGCAGTGTGTAAGCTGCAAGGCCTGCGTAGATGCCACAATGTCATCAAATTGGGACCCTGAAATGTTTGCAAAGACCTGCCTGCAGTTGAAAGATTCACTAGTAGCAGGGCACACCAAGTTTTGTCCTTGGCCAGACAACCCATGTCCAGAGTCATTTCTTGGCCTCCCAACAAACACACCGGTGCAGTGGAAAGAAGATTTTCGCATGAGATGCCAGGCCTTGCTTGATCTTGGTGCAAGTCTTCCTCTGCTTGACTCTCTCACATACAAGGACATGGATGAGGTTACAGAAGATGGTCTTGAACAGCTGCAGAAAGCCTTTCAAAGCTGTGACCAAGGCATGATGGATGAGGAGGACATGGAACAGGCAGTCAGGACATCCTGTGTTGTTGCTCTCTGTGGATGGAAATACAGACCATCTGATACTGACGCTGATGGACATACCCTCTTCTGTACCATGTGCCGCCGAGAGGTGGGCCTATGGAATTTCAAATCTCTGACATCACCCTCCCCAAGTGCATCCCCCTGTAGCAGTGGAAGACTGGATGACCCGTCTGGTCCCCTCGAGGCCATGTCCATGTCAGATGACATAGTGACAGATAGCTCCTCTCTACCTGGGTCAGAACGGCTTATGCCTCAGGATTCTATGGAAGTAGCTGTAAGTCAGAAAAAAGGGTTCATACGTTCACCAATAGGCTTAAAACGATCACGTGACACAGAAAGCTCAGGGCAGGAACATGAAATTGACACAATTTCAGACAGTGAGGAACATAAAATGGAGATGGAAATGAAACACAGGCTTCAGGGAGAAGAGGAAAGCCCTCAGCAAGACAGTACACAAGGTTTAACCCATGCCACAAGAGAAGAAACTCAGGACATGCGCACTACAGACTGGGCTATGGTAGTGGGGGATAACCAATCAAAAGAAGGACTTACTAGAGAGCTTCTGCAGTTACCACTACATGTAAGACCACTGTCTGGGCGGAGCAGCCCTATCTCTGGGCGGTATGGGTCCGAAAATTTGTCATATCGGTCACCACTGCATCATTCATTGAGCGATTTATCGGATAAAGGTCACTGTGAGTCACTTTGTGTTGAGGTAGAGGATGAAAGTTTGACAGAGAAACTACAGGCAGTAGAGTCTGAGCTGGAGTTCATGAGCGGGGGAAATGATTCTTCAGATCGAGGGGAATATACACCTGAAAGGAAAAGGATACGCTTGCAGGACATCGAAAAGGGCACTTTCAACCCAATATCCGAGCACAGGAGCTGGTGTCCATGGGTTACATGTAGTGTGAAAGACCGTGGGCGGTCAAGCAATGACCAAGGGACTAATGTCGGCTGGAAGATGCTCCTACACACCATACTTCCAAACCTTGGATCTGGCAAAGAGCACTCTTATGTTGAGTCGCCCCCACAAGACGCGTGGAAATCTGTACGGAGAGTACTCAACGAGGGCTCCTCGTCTACGAGCTCGCGAAGTGATAACCACAGCAAATGATCGTGGGCGACATGGGAAACGCACGATTCGTTTTGTGCCATCCGGTTAGTATCCTACCACACGCGCAGATTACGCATGTGCGGATGCGCATGCGCGATACCATAGATATCACGGGACAAGCAAGAGACAAAGAAATGCTAAAGCTATGGAACATTCTAATGCTGTTAAgaggtttttttaaataagattTTAAACCTGAAAATTGTTTATTGTGCTTAAGGGActtaataaaaccaaaaccATACGGATAAAGAAACATTTCTGGCAGCCAAAAAGTTGTCTGGAACGTACTCCGCAGTGGTCTGCTGGAACTTGGACTGGAATCCGGAATGGACACTTTTCTAGTGCACTGAGGAGACAAATGACACTGGGCAGTAAGAGGCAGAAACATTAGTATTAAAGgcagaaaaaaacataggaCATCTGTGGAACACTACTGGCATCCGTTCCACACTCTAAGTACTGTATATCTCCGATCAAAGCAACATCTATCGGTTGTACTCTGTTGGCTAAAAGTTGTATACTGTTTATTCGTCTAGTCtttcattataaaaaaaagccaaagaGAGCAACAAAATCTAGATGATAACTTTGAGATGTATATTGGCAAATGaaactttaataaaatagAAGGATTTACGTACAATGTTTCCAATGATACGTACGTATCGTACATTATAACAATGAGTTTTTATTGAGTGCAAATTTTTTGTCACAAAAACTGAGTGGGTCATGTGTCAACCTTGGTTGAGGCATACCTTGCATACATCGCTTATCGTTTAGTGGACCCCTATGGCTAAGCACTACAAACATGCAGGCATTTTAGAGCTTCCTTTGGCGCGTGTTCAGACACGCCATTGGAACGGAACTGCAATAAAATGGAGGCTGTCGATCAGGGACCCTCGACCCTTGTATTGGGAACAATTTCCTTGCAATAGGTCGAGTAAAGAAGTTTTATTCTATATCAAATGTTGAGATAGGACTGCCGTCAAATTCCAATTGGCTTATGAATAATTTCATTTTGAAGACATATTATTACGCATGAGCCTTGGAGGTTTTATATAATATGATTCTAGGTGTGGCAAGGGTCAGTCCTTAGACATGCACCAGGTATAACCACAAGCTCTTGAAAAATCCACGCCATTTGTTTGCCCCTTAGTTGTAATTTCATAAGTTTACGGATAGCTTTTGTCGGGGTTCAAAGTGTGGCTTTTCAGAGGTACAACTAGTAGAACTATGACTAACGCAGAATTCCTCGATGGCCAGCTGCCAAATTGGCATATTTCCCTTGCTTAAAGACATTCGGCCCGTGTCCTGACCCTTTTAATCTTTATCTGGAGTTTACACCTAACGGAAATAGCAATCCCCAAACAATACGTAAATACGTTGAGAAGCTAGAAAACAGGTCGCGATCCCTGTGCCGAACGCCCTGGAATAGAAGCACAACGGAACATAAACATACAACAAGGATTAACAACAATGATAtggaacaaaaataataagacaCAGAGAGGGTGGGTGTGCGCAAGGGTTAATGTGCGTCAAAAGTGGAATTTGTTCCTCCGTGTGTTCATCTTGTAAGTGTGCGTCGTAAAAACCTTAGCAGGGAATGCGAGTTGTTTTTCGCTCAGCTTCACCCTATTACCCGGGTGACGCGCAATTGAGATTTATGGCGATGTGAGCAAGTGATTCCAGGTTGGGGGAGAGGGGCGGAGTGTTAGTACCCCTGGTGTAACCCCCCTTACCCTCGTGCAAACAAGTCAAGTCTGACAAGACGTGATGTTGTCAGATAGCGCTATATCTCATAATCCGTCCATAAGTAGCCTTGCCCAGCACAATTAGCTCAGTTTGAGGTGAGGTTCTCTATGACAAGAAATCCGCCCGTCAAAGATGAAGACGTTTGTGTTTCTAGTGTTGACTGTTCTATTGCTCGTTACAGTCCATGGAGGGTTAGTCAGAGAGAAGCGCGGTATTCACAACCAGCCCAGAACCTGCCTGAGGAACCGCGCAAGCTGTGACCTCAACCATGCGCACTTTTGCTGCTCTGGCTATTGCACTTGGGTCTGGCGTAAAAGAGATCACGGTGGCTTGAGAACTGCCTGTTGGGTCAAGCGTGGATGAGTGAAGGCAGCGTATACATAATCGCTTTTGAACGTTTCAAAGATATATGCAACAATAAACCGCTacaaaataattacaataatGAGCAATTTAATCATCATCAGTAATAATCGCTGAAAATTTAAAGCATTTGTAAATTGAAATCACGCTTTCGTGAGTTGTGCAACTAGGTGTGTTATTAAAGCTTAGGGCTTACATA

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)	OG0006132 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07967 all species →	zf-C3HC	C3HC zinc finger-like	Domain	Interproscan
PF08600 all species →	Rsm1	Rsm1-like	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012935 all species →	Domain	Zinc finger, C3HC-like	Interproscan
IPR052238 all species →	Family	SCF(NIPA) complex component	Interproscan
IPR013909 all species →	Domain	Nuclear-interacting partner of ALK/Rsm1-like, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15835 all species →	NUCLEAR-INTERACTING PARTNER OF ALK	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	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_032243135.2.

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

Expression pattern (RNA-seq)

Transcript abundance of XP_032243135.2 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

15.6Max TPM

8.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	10.20	13.25
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	8.26	9.85
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	6.10	6.53
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	10.87	12.57
whole 6 week old aboral regenerate · regenerate uncut	3	3	7.24	7.95
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	7.06	11.51
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	6.32	10.16
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	11.45	15.61
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	9.33	10.18
whole 6 week old aboral regenerate · regenerate 20hpa	3	2	6.00	9.30
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	8.46	9.31
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	6.70	11.05
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	9.73	10.28
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	7.44	11.20
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	9.24	9.81
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	3.03	9.10

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	13.25
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	9.67
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	7.66
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	9.85
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	7.80
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	7.12
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	6.53
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	6.06
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	5.71
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	12.57
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	10.37
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	9.69
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	7.95
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	7.62
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	6.14
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	11.51
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	9.66
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	10.16
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	8.80
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	15.61
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	10.44
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	8.31
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	10.18
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	9.54
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	8.25
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	9.30
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	8.70
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	9.31
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	8.53
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	7.56
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	11.05
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	9.06
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	0.00
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	10.28
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	9.47
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	9.44
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	11.20
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	11.10
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	9.81
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	9.64
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	8.26
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	9.10
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.