Gene detail

Detailed information of XP_032235178.2 in Nematostella vectensis

Genomic Location: NC_064044.1:10193248...10199248
NR annotation: XP_032235178.2, endoribonuclease ZC3H12A [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032379287.2

CAACAAACGCACATCCAATCGAGATACGTGCTCTGTAACGAGACGGCGTTAATTACTTCGGTCTTACAACTTCCTGGTTTCAAACGCTCTCAAACGATGAATCTGTGAGGATACTAGGAAAATTTCTCCTGTATTAATCCTTATAATATCAAGAAATTTGCGGTTGAACGTGCAACAGTACTTTAATATGGCGGATACTATACAAGACGAAATAGCCGTGCAAAATGACAAGAAGAGTATGGTCGCACAAACCTCAGAGAGGATACGAATGTTGTTCAATGTTAATGTGACTTTCAGCCATCCCGAGACTAGTGGATATCAATGGGTACAGCTGAAAGGGTCTAAAGATGGAGTACTAAAGGCAAAGGAATACATAAAATCGTTGTGCAACCCAGAGATTCAAGGGACAAAAGTGGAATTTGATGAGAGATTCTATGACGCTATACACGAATATAGTCGACATGTGGAGAAGAATTCTTGTGCGATTGTAATGTTTTCAGCGAAAAACGAAGCTCTAATTCAAGGAAGCGCCATGGCCGTCGCTATTGCAAGCTCATCTATAGAGGAACGACTCAACGAGCTAAAAGCTGGATTACAACATTCATTCCAGGACCGTTCAAATAACCAAAGAACTGGCAACGTATCTAGCAGTAGAACTTACGCCAACTCTCAGTCTAACATACAGACTGGGCCCTATATTGACCCATCTTTGGAGGAATTTGCAATGAAACTTGGTTATACAAAGGAGGACATTTACCAGGTTGTGCGAAAACAGGGCAAAGAAGTTGACCAGAACACATTACTTCACGAACTGATCAAAGTTAGTGCACCAGGAAGACCAAGACAACAGGAGAATCCACCCCAAACACTTCCTCCAGGTCCAGCGCCTTTGCCAGTACCTACAAGGCGTGGGGACATAGTTGCACGTGGTGCACCTTCTATGTCGCAACTGGCAGACAGGGGTGTTATCCCAGATACAAGCATTGTCTTTCCCAAGGGTGCAAATATGTTGGCTGAAAGGCCTCCAGAGGAGGAAGCCAAGATCTACCATGATGTTGTAGGGCCGAAGGAATCTTCCTTGGATACTGAGCTACGTCATATAGTCATTGATGGCAGTAATGTTGCGATGAGTCATGGCAACCAGCAATGCTTTTCCTGCCAAGGAATTAAGCTCTGTGTGGAGTGGTTTAAAAAACGGGGACACAAAGAGATCACTGTGTTTGTACCACAATGGAGGAAGGAGGCTCCTAGAATTGATACTCCAATGGAGGACCAGGACATACTATTAGAACTTGAAAGACAACGGCATGTTGTGTTCACGCCATCCAGAAGAGTAAATGGCAGGCGGATAGTCTGTTACGATGACAGGTTTATTCTACGACTGGCATCAGAGATTGATGGGATCATAGTATCGAATGATAACTTTAGAGACTTGTTTGATGAAAATCCAAAATGGCAAGAGGTCATTGAGCATAGGATTCTTATGTACTCTTTTGTTGGAGACATATTCATGGTCCCTGATGACCCTCTTGGCCGGCATGGCCCCACCCTAAATGACTTCCTAAGAAAAGGGTCTGTTAGCCATCCACGAATATGCCCCTATCTGAAGCGGTGTACATATGGATTGCGGTGTAAGTTCTACCACCCTGAACGGGACCCTGGGAGACAGGAAAAGCAGGAGTTGCGGCAAGTGACGTCATCCATCTCTCAGGGGAGGTACTTGAGGGAAACACCTCAAGGGAATGGGGGAATGCTACAAACACAAGATTCCCAACATAAGGCTCGAGCAGCCCCCAGAAATGGAGGTCCCCAATATACTACCAGCCCATATGGACAACTTAACATGCAGTATAGTGCTGCACTGTCTCACAGGCAGGCATTAACGATGCGGGATAATGGACGTGACATGGAGAGACACACCAAGTCATCAGCAACAAGGACTAATTACGACCAGACTGATGGGATGAATAGTGAACTCTTCAACGAACTTATAACCATTTTCCCAGATAATGAGGAGGCGATATTGAAAATAATGCGCGAGAATCCAAATGCTGACAAGCAGCTACTGGCTAATCTTGTTGCCTCTTGTGTGTGAGTTAAGTGGCATTCATGGGTGAGCTTGGATTGCTAGATGCATGCAAAAAAATTTATAATGGTGGACTCATTGATTACggtacaatttaaaaaaataataataatttcacTGGCTGAAATTTGATGTTTAGCTAGTGCCTCAACAGTCAAGAGTTTACAAGCCAGACATTAAacaaaaattttcaaaatacaGAGTACTACAGTATGAGACCAATTGAAAGGATTGAGATATCCAGACTCAAGGACAACAATGTTTTGAATGTATTTGTTACTTACGTTATTCACTATCAAAATCTACTCTAACTCAAAGTGGAAATCGCATTAGTTTACTACTGGTGGCCTGGCAGAAACCTCAACCAAAAGGAGtcttttgctccgacgaagggctaaagctcgaaacgtcagcgcaagcactctgtttcacagaggcgttttacataccttttcatcactctgtttcacagaggcgtttaacataccttttcaccttgtgttgattcataccttgtctacaccacacCTAcacagaccatctagtttttctacagcttgtctgtagtctttctagttatactatTAGAATCCTCCCTATCTTATAGGCCATCTGCTATTAGTTGCTTTTAGGAGCCTTTCATTAGTTGCATCCTTAATGAAGGCTCCAATAGCCAAATTGCTTGTACAATTTTGGAagattttttgtgttttctgtTAGAAATCATTAAAGATcgttatgtttttttaccaGAAGTCAACTGTCCGATCGCCACTTTAAGTAGAGTAGACATTGATAATGAGTAATGTAAGTTGTTTCTTAACACTAACAAAGAAGGCATGAGggctggggggagggggaaaaaTTGATCTTTTGTGGACTAAAAGTTTTGTGCTTCAAGAAAATACGGTTTAAAGTTTTGATAAATCCCTGTTGTTATACTCAAAGAAGTATAGTGAAATGTTTCTTTCTATGAGAGAGTGCAATTATTAGATAAGTAATTAATGTTAGTTTGTGTTAAAAGAATTTGTTCGATTTTTACTTTAACTGTTTTTCTCCTAAAAAACCCATGTGGGTTGTGCATTGATAGTAATATTTGTCAGCTTGCttgtaattatttttgtgatgtttttttctatggAATAGCGTTCGTATTTTTACCATCTTTTTGGCTGTCAGCTAATAGACACTTTATTGTCTGATATAGCCAGTAGTTTAGTCCCTCCTGTTTTTATGTCAGGACATCAGGAGCTTGAACCCTAAAATTAAACATTTTTCTGCTAAATTCAAATTGAATTTTAGCAATGATAAATATTGTCTTCTGTACACCTTTGGTCTAGGGGAAAGgattaaataaataacttttGTTGTGTATTGTACATTGGAAAAACAGCGAACatagcaacttattcagcaccaacaaacaaaaaaaacagatatttttttttcagaaaggaaTTAGTTGAGTTTATTTCTTTGTCATTCTCTGATGTGACGGGTGcagtcatttcttatttttttgtttgatcattttgttttgaatttgccacccaaaaaggtcatgtgatctcttagtgcaagtccccCTTTTACCCTTTCACCATGTTTTTGGCTTGAAAATCTCTTTTAGGGCAGTTTAAAGAATGCTTTCTTCTAATTTGTGCAAattattgatatatttttttcacaaaagTGAAAATACATAAGATTGCATGTACAAAGTCAAGAGTATCCTATATGTAGAACAAAACACATATTAGGGATAGTTTTGCAAATGAGAAATAAAGTTTAAATATTTGCA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5D1E8	Endoribonuclease ZC3H12A OS=Homo sapiens OX=9606 GN=ZC3H12A PE=1 SV=1
Q5D1E7	Endoribonuclease ZC3H12A OS=Mus musculus OX=10090 GN=Zc3h12a PE=1 SV=2
A2A288	Probable ribonuclease ZC3H12D OS=Homo sapiens OX=9606 GN=ZC3H12D PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001621 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF18039 all species →	UBA_6	UBA-like domain	Domain	Interproscan
PF11977 all species →	RNase_Zc3h12a	Zc3h12a-like Ribonuclease NYN domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR040546 all species →	Domain	Rege-1, UBA-like domain	Interproscan
IPR021869 all species →	Domain	Ribonuclease Zc3h12a-like, NYN domain	Interproscan
IPR000571 all species →	Domain	Zinc finger, CCCH-type	Interproscan
IPR051101 all species →	Family	ZC3H12/N4BP1 Ribonuclease and Regulator	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12876 all species →	N4BP1-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0046872 all species →	Molecular Function	metal ion binding	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0004521 all species →	Molecular Function	RNA endonuclease activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0036464 all species →	Cellular Component	cytoplasmic ribonucleoprotein granule	Interproscan
GO:0090502 all species →	Biological Process	obsolete RNA phosphodiester bond hydrolysis, endonucleolytic	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_032235178.2.

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

Expression pattern (RNA-seq)

Transcript abundance of XP_032235178.2 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

45TPM > 0

16Conditions

34.7Max TPM

13.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	10.66	13.58
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	8.03	11.44
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	23.19	34.74
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	22.46	27.04
whole 6 week old aboral regenerate · regenerate uncut	3	3	9.39	13.34
whole 6 week old aboral regenerate · regenerate 4hpa	3	3	21.33	24.11
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	9.93	11.02
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	10.23	12.00
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	9.21	16.69
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	13.93	16.53
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	17.04	18.10
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	14.44	22.00
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	10.00	11.38
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	7.82	14.62
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	8.38	14.80
whole 6 week old aboral regenerate · regenerate 12hpa	3	3	17.95	22.53

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	13.58
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	10.25
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	8.16
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	11.44
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	6.38
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	6.26
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	34.74
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	22.05
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	12.78
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	27.04
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	21.82
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	18.53
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	13.34
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	9.10
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	5.71
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	24.11
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	21.90
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	17.99
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	11.02
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	9.63
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	9.13
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	12.00
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	10.61
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	8.08
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	16.69
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	10.95
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	16.53
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	12.84
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	12.43
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	18.10
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	16.87
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	16.14
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	22.00
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	11.70
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	9.61
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	11.38
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	9.47
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	9.15
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	14.62
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	8.85
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	14.80
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	10.34
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	22.53
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	18.16
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	13.16

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.