Gene detail

Detailed information of XP_032236656.2 in Nematostella vectensis

Genomic Location: NC_064044.1:998711...1018803
NR annotation: XP_032236656.2, nucleoporin NUP42 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032380765.2

GTCAGTTTTCCCCAATATGGCGGCCTACACAAGTGAAaaatctctctctctctcaatAAACAACCATTTCTATTCAGTTTGACGAGTCCAATGTAGATACATATCTCGTGGAGGACTCTAGATTTGAGTAATGGTAGTCTGCCTGTATTTTCTCCGTGGTTCATGTAGTTTTGGTGACCGATGTAGGAATGAACACCCACGCGCTGGCGCCGGTCAGAGGGCAAGTGTTGGTGGCAGAGGTGGAGGCTTCGGTGGCGGCGGCGGGTTTGGCGGAGGTGGCGGTGGAGGGTTTGGCGGAGGTGGAGGCGGCGGGTTTGGCGGAGGTGGCGGTGGAGGCGGCGGGTTTGGCGGAGGTGGCGGTGGAGGGTTCGGCAGTCGCGCAAGACCTGCTAGTAGTAACAGCAATGCATGCAGGCACTTTCTCAAGGGGAACTGTTGGCATGGTGACAACTGCAAGTATTCACATGATGTGTCTAATGCAGGCCAGGGAGGTTTTGGTGGTCAGCCCAGGCTTGGCCAGCAAGGTGGGGCTTTTGGCCAGAGCAGAGGAGGGTTTTCTGGTAACACAAGAGACAGAGCTTTCAACACCAACCAGAATCGTTTTGGTGCACTTTCATCGCTTGGATCATCAAATCCACCCAATGTGTTAGGAGGAAATGACACACTAAACCCATCTCAAATACAACAGTCTGTGCATAGAGATTTAGATGCCTGGGGACCCAGTAAACAATGGCCATTGTCGTGCTATTCATACCACAAGGAAGAGCCATGCCTACCAGGTCTACTTGACTTTACTCCTGAGGAGATCAGATTGGAGGCTTACAAAGCAAAGGCAGAGAACAAGttaccagtctatGAACAAGCTCTTAAAGATCTGTGGAACAACAATAACCAGCGACGTCAGGAGCTCAAAAATATGTCTGTCATGCAACTGCAAGCAGCCATCAAGTCAACAAAATCTACCTCAGCTTTTGGAAATCCTCTCATTCCATCAAACATGTCGCTTGGGTCTTCACTGAATTCTAATGCGCAGACAAGCAGTGTATTCGGGACAGCAGGCAGTACAGGAGTATTTGGTGCCACTGCACAGCAACCAGCAACTGGTTTCTTTGGGAAAACGTCTGCCTCACCTCCCAACACATTTGGATCTGGAATGGCAACCAGTGCAGCGCCCTTTGGTACAAGTCCGCCCGCAACTACTGCCAATGCAGGAGGGGTGTTTGGTTTGGCCAACCAGCCAGGGACGGCTGGTTTTTTTAGTACAACCAGTCAACCTCAACCTGGTGTATTTGGTACAACCAGTCAGCCTCAACCTGGTGTATTTGGTTCTACCGGTCAGCCTGGTGGTAGTTTATTTGTTGCTTCAAGTCCAGGAAGTGGATTTGGTAATAATTCCCAACCTGGCCTGTTTGGAACAGGGTTTGGAACCTCACAGCTTGGCCAGGGCACTGGTTTGCTTGGAAATGGAACTGTGGCGACAGCATCTAGCAATAACTTGCCCGCCACTACACCAGGCCCGTTTAGTACTCCATCTGCAATACCGCAGTCATCTACAGCTCCATCTGCAACGGCCTCCTCAGCTACTAATCTTAAATGCAGCGAACAGGACATTGCAGCCTTCAAGGCTGAAAAGTTTGTGTTGGGGAAAATACCAGAATGCCCTCCTCCGCCAGAACTTTGTATATAAATCGTCACTAACAATTacaatgcgacgcgcgctaccgtggccaccttgacgtTTTAAAGAACTAAGCCAACAAGGATGGGTAGACGCGCTTTCTGGATGAAACGAGTTTCACTAACCAGGCAGGCATGTACAAATCATAAAaattttgcctccttcttatTATGAAGTTCATGTCAAAACTCGAGATTCTCGGATGCAAATTAGCTAATTTGCTTAAAACTTTGCATCGTTGACTACGGCATAATCTCTGAGCATTGCTTTATATTTGAGAACATACTCAGGTAATATTTTTACTGAACATACGCTGTATTAGTGAATTAACCGCCCAACACAAACACATTCATAATCGTCACACTCAAGGGTGAAGTGGACTGCTTCCAAGACCTACATACTGTATTCTGACCAGTGTGGCGAGGATTGATTCCGCTGTAAAATCAATGCATATAAAACGTAACTTTCAGTAGATAACAAATTCCATTTGGGACACTGAAATGCCACAGTAAAATCTATGCAAATAGAAATAATGTACCTTGCAGTAGATAACTAATTCCACTTGAATTACTGTGAAATGCAGTCCTTCCTTACAATTAAAACAGTGCAACGTCATGTATATCGAACCAGAGACTTTAAA

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)	OG0006618 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00642 all species →	zf-CCCH	Zinc finger C-x8-C-x5-C-x3-H type (and similar)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000571 all species →	Domain	Zinc finger, CCCH-type	Interproscan
IPR051767 all species →	Family	Nucleoporin NUP42 domain-containing protein	Interproscan
IPR036855 all species →	Homologous_superfamily	Zinc finger, CCCH-type superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46527 all species →	NUCLEOPORIN-LIKE PROTEIN 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0046872 all species →	Molecular Function	metal ion 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
K14321	NUPL2, NUP42, CG1; nucleoporin-like protein 2	-	Messenger RNA biogenesis	ko03019	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_032236656.2 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

9.7Max TPM

4.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	2	4.25	7.34
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	4.16	6.35
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	3.87	4.12
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	3.78	4.31
whole 6 week old aboral regenerate · regenerate uncut	3	3	4.13	5.14
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	4.95	9.69
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	3.77	6.57
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	6.13	7.04
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	3.87	6.34
whole 6 week old aboral regenerate · regenerate 20hpa	3	2	3.62	5.59
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	4.39	4.95
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	3.75	6.64
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	5.71	6.54
whole 6 week old aboral regenerate · regenerate 48hpa	3	1	1.82	5.46
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	4.75	7.61
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	1.92	5.75

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	7.34
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	5.42
SRR6320837	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	6.35
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	3.36
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	2.76
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	4.12
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	3.93
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	3.55
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	4.31
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	3.79
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	3.23
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	5.14
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	4.04
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	3.22
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	9.69
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	5.17
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	6.57
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	4.74
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	7.04
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	5.98
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	5.37
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	6.34
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	5.26
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	5.59
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	5.27
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	4.95
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	4.16
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	4.08
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	6.64
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	4.62
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	6.54
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	5.41
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	5.18
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	5.46
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320871	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	7.61
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	6.65
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	5.75
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.