Gene detail

Detailed information of XP_032240397.1 in Nematostella vectensis

Genomic Location: NC_064040.1:3708903...3714908
NR annotation: XP_032240397.1, eukaryotic translation initiation factor 5 isoform X2 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032384506.2

AGAACGATGCCTTATCGAACACTATTTTTATTCAGGCATGCGCAGTAGGACTGTGacgtaaaatataaaaatcacGTGGCGTTCACCAAGTTATCTACATAAAACTCAGCCTTCTTCAAGGTCTGTATTTAGGGATTTTTTCCCCTTCTCGGCTTAGTCCAAGTTCTTCGATTACAACCCCGATTTCGTCATTGCAGGACGATTTTATGAAGTTGTCGAATCATACAGgTTGGAATCAACTAAGTAGGATCAAGATTCCGCTATCAATACAACCTCATAGCAGGCGCGAAGGCCTAAGAGACGTGAGGAGTACTAACTCAAAAAGGTTTATGACGAATACAAAGGTTCGGTTTGCTAGTCCAACAAGCAATTACTTCAGGCGATTAAAAAACAGTAGACTTCACAGAAAGCACATATCAACATGGCTCTGGTCAACGTCAACCGCAAGAACATGGACCAGTTCTACCGCTACAAAATGCCTAAACTCATAGCTAAGGTGGAAGGCAAAGGGAATGGCATCAAGACAGTTATTGTGAACATGCCAGACATTGCCAAGGCTCTGTCCAGACCACCCTCATACCCCACCAAGTATTTTGGCTGTGAGCTTGGAGCACAAACCCAGATAGATCTGAAGAATGAGCGTTACATTGTCAATGGAGCTCACCAGGCAGACAAGCTACAGGAAATCCTGGATGGGTTTATTGAGAGATTTGTGCTATGTTCTAGCTGTGAAAACCCTGAAACTGTACTGGTTGTTGATACTCGCAAGGAAAGAATTGGCCAAAACTGCAAGGCATGTGGTCATCAAGGATTCATCAATCTTCAACACAGATTGATAACATACATCTGTAGAAACCCCCCTACTGGTGAAACTGGTACTCCGTCCAAGAAGGACAAAAAGGAACGTCGGAAGAAGAACCAGAATGGTGAATCAAGCCCCACTCATACCGAAAATCAGACCAATGGTGTGGACAAGTTTGACATCCCTGAAATCAACAACCATATACATGCATCTGCTGAGGACGACTGGTGTGTGGATACTAGTGAGGCTGCTGTCCAGCGTAGAATGGAAGACCTGACATCTGGTGTCAAGGGTCTCACCTTCACTGATGATCTTGAGAGGCCCGAGGAACAGAGATTCAACATGTTATATGAGTTTGTCAAGAGTAAGAAAGAGTTGGGTAAAGTAGACATGACTGGTAAGGAGATAGTGGCAGAAGCAGAACGCCTAGATGTGCGTGACAAAGCAGTACTGGCCATCTCAGAGATCATGTTTGATGCACACATGCTGAAGCAAATCCCTAAATACAGGATGATCTTTCTCAGGTTTGTGAATGAGAATCATAAGGCACAGAAGTACCTGCTTGGTGCATTTGAGATGCTGGTCGGCAAGTCTTACCCGAAGGAGCTCATGCCCAAAGCAGCACACATTCTCAAGGCTCTCTATGACAATGATCTCATTGAGGAGGAGATTGTGCTTCAGTGGGCTGAAAAGGTTTCCAAAAAGTATGTGAGCAAGGAGATCTCCACTCAGATCCACGAGAAGGTGAAGCCTTTTGTCCATTGGCTGAAGGAAGCTGAGGAAGAGGAGTCAAGCGAAGAGGAAGACGAAGAGGAGGATGACGACCTGGTGTACGACAACAAGGCAGAGCAACTCAAAGTGGTGGTGGAAAAGCAACCTCAGCAAGCCATTGAAGAAGACGAGGACTTTGACATTGATGCGATCTAACTCTACTGTTCACATAGCAATTTTAGCGCTGCATTCACTGTTAGCATTATGCTGTGTCCTTACCTGATTTAGCTATTCTCTAAGCAGGCTTTGCCTTCTCATTTCCGATGCCTCTCGTCTGTGTAAGTCTTTATTTATGACAATTCACCTATCAAACTAAGAGATTTCGTAGTTTGTGTTATACTGTAAGACTGATGGGTTAAATGAAACCTTGATTTGTAGTGGTACCATTAAAGTAACTACTGGATAAAACTATTGGTCCAGACTAAATGTTTATAGTTTCAAGATAGTAATATCTGATTTATTAGTGCCGAAAGAAAATTATCTTTGATCGTTCGTTTCAGACAGTATTAATGCATGCAATATGCCCTATTGGTTATGTTCGTTAAATAAATTTTTTTGGAATTAAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P59325	Eukaryotic translation initiation factor 5 OS=Mus musculus OX=10090 GN=Eif5 PE=1 SV=1
Q07205	Eukaryotic translation initiation factor 5 OS=Rattus norvegicus OX=10116 GN=Eif5 PE=1 SV=1
P55010	Eukaryotic translation initiation factor 5 OS=Homo sapiens OX=9606 GN=EIF5 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008361 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02020 all species →	W2	eIF4-gamma/eIF5/eIF2-epsilon	Repeat	Interproscan
PF01873 all species →	eIF-5_eIF-2B	Domain found in IF2B/IF5	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003307 all species →	Domain	W2 domain	Interproscan
IPR045196 all species →	Family	Translation initiation factor IF2/IF5	Interproscan
IPR002735 all species →	Domain	Translation initiation factor IF2/IF5 domain	Interproscan
IPR016190 all species →	Homologous_superfamily	Translation initiation factor IF2/IF5, zinc-binding	Interproscan
IPR016189 all species →	Homologous_superfamily	Translation initiation factor IF2/IF5, N-terminal	Interproscan
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23001 all species →	EUKARYOTIC TRANSLATION INITIATION FACTOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0001731 all species →	Biological Process	formation of translation preinitiation complex	Interproscan
GO:0001732 all species →	Biological Process	formation of cytoplasmic translation initiation complex	Interproscan
GO:0003743 all species →	Molecular Function	translation initiation factor activity	Interproscan
GO:0005092 all species →	Molecular Function	GDP-dissociation inhibitor activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006413 all species →	Biological Process	translational initiation	Interproscan
GO:0071074 all species →	Molecular Function	eukaryotic initiation factor eIF2 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
K03262	EIF5; translation initiation factor 5	-	Translation factors	ko03012	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_032240397.1 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

48TPM > 0

16Conditions

167.6Max TPM

121.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	123.26	133.44
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	105.21	125.41
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	120.60	133.50
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	111.98	117.09
whole 6 week old aboral regenerate · regenerate uncut	3	3	103.94	105.12
whole 6 week old aboral regenerate · regenerate 4hpa	3	3	96.92	99.24
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	137.88	167.59
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	126.83	133.17
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	129.99	133.14
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	126.99	131.09
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	122.28	128.06
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	130.56	143.13
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	124.30	130.74
whole 6 week old aboral regenerate · regenerate 48hpa	3	3	145.50	150.95
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	113.59	124.04
whole 6 week old aboral regenerate · regenerate 12hpa	3	3	128.48	140.02

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	133.44
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	128.70
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	107.65
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	125.41
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	100.19
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	90.04
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	133.50
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	114.65
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	113.65
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	117.09
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	110.54
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	108.31
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	105.12
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	104.47
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	102.23
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	99.24
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	99.01
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	92.51
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	167.59
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	128.37
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	117.69
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	133.17
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	127.80
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	119.51
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	133.14
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	129.76
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	127.06
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	131.09
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	127.82
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	122.07
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	128.06
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	127.98
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	110.80
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	143.13
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	131.78
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	116.78
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	130.74
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	124.15
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	118.02
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	150.95
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	145.10
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	140.45
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	124.04
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	112.94
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	103.81
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	140.02
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	124.81
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	120.61

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.