Gene detail

Detailed information of XP_032233362.2 in Nematostella vectensis

Genomic Location: NC_064043.1:15236555...15254775
NR annotation: XP_032233362.2, protein Red [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032377471.2

GATGAAATCTTCCACTTGCACATCGGGTTGCCTGTGGCTTTTAAGCGCTTTGCATGCTGGGTGAATAGAACCAAACAACAAAATGCCTGAAGGAGCTGAGGTTTTTTCTAACCCTTTGGCACCGCCGTCCGCGTCAAACGCACATCATGGCGCATCGTCTTCTGCCGCGCACATAGCGAACCTGACCAATGCAGACTTTAGAAAGCTGTTGATGACACCGCGGTCAGCGCCATCCGCTGCACCGCCGTCTGTGAAGCCACCAAGTGTCAAGGAGACAGTTGGAAAGCCACGTCAATACAACGAAGATGATGATCCGACTACTGCCcgcagaaagaagaaaaaGTACTATGCTAAGCTACACAAGCAGGAggaagagagagaaagagagctGGCCTCTAAGTACAGAGACAGGGCAAGAGAGCGCAGGGAAGGTGTCAATCCTGACTATCAGAGTACGGACACTCTTAGCTCAACAGCAAACTACAGAGCTGTGGGGCCTACACAAGAGGCAAATGACACCACAGCTGAGCGCCGTCGTCTTGCTATTCAGGAGAGTAAGTTCTTGGGTGGAGACATGGAACATACTCACTTGGTGAAGGGCTTGGATTTTGCCCTGCTACAGAAGGTCCGCAGTGAAATAACAGGAGAAGGGGATGAGGGAGAAGGGGAACACAAGCCTCACAAGCAGAAAGCTGACAGGGTGGAAGAGGAAGGTGAAGAAGACCTGCCTGAATTCAAGACACGGCAAGgACAGAGAATTTATAAAACAATCTTTAGAAGCAAGGTTCCAGAAAAGAATGAACTGTTCCAGACTGGAAGAATGGCCTATGTTTTTGAGTTGGAAGATGAATACGCTGAGAGTGACATCCCGACAACTCTTCTAAGAAGCAAAGCAGATTGCCCAGGCGTGGAGACCCAAACAACATTGACAACAAACGACATTGTAATTAACAAGCTAACGCAGATCCTGTCCTACCTGAGGCAGGGAATGAGgaataaaaagatgaaaaagaaagaaaaagcaaaagagaaagaaaaagaacttACCAAGCCCAAGTCACAGGGCCCCGAAGATAGCATCTTTGGTGACGTTGGTGACTATGACACGGGCATTGCACTCAAGGAACACAAGAAGGAAAAGCAGAGAGGGAGAGATCGTGATCAGGACAGAGATCATCGTGATCAGGACAGAGATCACCGGGGCAGGCATAGAGACCGTGACCGCGAGGAGCGCAGGCATAAGGAGAATGCATACTTTGAGAAGCCATCCAGGGATGACCAGGAGGAACTATTCAACAAATCAGATATGAGTGCAGCAGAATTCGCCAAGTCGGTGACACAGAAGTTTAAAAAGACTGGTGCAGAATGGGAGAAATCGGAAGCAAACCAATTGGCAAACAAAGCCAAGGCCAAGCAGAAGAAGGAGCAAAGAGATGTCAACTTTGTCCCTGACAGCTACGCCGAGTGCTACCCAGGGGCAATGGAAGTGGCCGATACCACATATGACAGTGACGATGATGCAGACTATACCAAGATGGACCTGGGTAACAAAAAGGGGCCAATCAAACGCTGGGACTTTGAAGATGAAGAGCAGTATAACTCTTACATGGAAACAAGAGAGGCATTACCCAAAGCTGCTTTCCAGTTTGGCATCAAAATGTCAGAGGGGAGGAAGACGAGGCGTACTGGCCCCAAGGATGAGAAGACCAAGTTAGACAGAGATTGGCAACGCATCAGTAGGATGTTAGCAACAAAATCCAAGTCCGAAGAAGATGGTGAAAGTGGAGGAAAACGAGCGAAGCATTTCTAAATACTCCAGCATGAGTGTACTGTTGTTAGTGACTGGGCACATGTAGTGGGCTTACTCATGGCTACTGGGTTATCAAGGTCTGAAATATTCTTTCCTACACTGTAGTATGGTTGTTTTTTCTTGGATCTTTTCTGTTGGGAGAGCAAGCTCCCAAGGCTATTTTCATGCCCACGGTAATACTGCATTAATTTGTGCCATCCTTGTAAAATAGGCAAGATCATCACATTTTAATCAAATAAAGGCAATAAATGACAATG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q66HG8	Protein Red OS=Rattus norvegicus OX=10116 GN=Ik PE=1 SV=1
Q9Z1M8	Protein Red OS=Mus musculus OX=10090 GN=Ik PE=1 SV=2
Q5NVI3	Protein Red OS=Pongo abelii OX=9601 GN=IK PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004965 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07808 all species →	RED_N	RED-like protein N-terminal region	Family	Interproscan
PF07807 all species →	RED_C	RED-like protein C-terminal region	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012916 all species →	Domain	RED-like, N-terminal	Interproscan
IPR039896 all species →	Family	Protein Red-like	Interproscan
IPR012492 all species →	Domain	Protein RED, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12765 all species →	RED PROTEIN IK FACTOR CYTOKINE IK	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000398 all species →	Biological Process	mRNA splicing, via spliceosome	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K13109	IK, RED, RER; IK cytokine	-	Spliceosome	ko03041	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_032233362.2 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

32.6Max TPM

21.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	26.17	27.77
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	20.38	25.13
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	14.49	16.33
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	16.80	19.54
whole 6 week old aboral regenerate · regenerate uncut	3	3	17.85	18.69
whole 6 week old aboral regenerate · regenerate 4hpa	3	3	21.10	25.25
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	23.24	26.54
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	25.97	27.95
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	18.12	29.65
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	27.55	31.74
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	23.83	27.35
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	27.87	32.60
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	25.69	28.33
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	19.37	30.18
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	22.75	26.85
whole 6 week old aboral regenerate · regenerate 12hpa	3	2	13.68	23.82

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	27.77
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	26.09
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	24.63
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	25.13
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	20.12
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	15.89
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	16.33
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	15.92
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	11.20
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	19.54
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	15.63
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	15.22
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	18.69
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	18.03
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	16.83
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	25.25
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	20.25
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	17.80
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	26.54
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	23.45
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	19.75
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	27.95
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	26.14
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	23.83
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	29.65
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	24.71
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	31.74
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	26.94
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	23.97
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	27.35
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	22.71
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	21.44
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	32.60
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	25.75
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	25.25
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	28.33
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	27.05
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	21.68
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	30.18
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	27.95
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	26.85
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	25.19
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	16.21
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	23.82
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	17.21
SRR6320878	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.