Gene detail

Detailed information of XP_048579656.1 in Nematostella vectensis

Genomic Location: NC_064034.1:19009675...19017472
NR annotation: XP_048579656.1, translation initiation factor eIF-2B subunit gamma 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_048723699.1

CTATTATATGTCCGTCTCAAAGtccatagccaggggggggggggggcattttCTCGCTGAAGGTTTTtcagaagaaaaataaaacatatcgGTGTTTAAAGAGAAGAAGCTGCTTAGCAAACTGAAGATGAAGGCCTCCATTTAGAGTTTGCGGGTTGCGGTCGCGCGAGCACAGCCTTGCTGTCACACCTCGCTGACTCTGAGAAATACAAGTCACGGCTGGAAGTGTGCAAATCATAAGCTAAAACGGACCAAGGAAGAAGCACAGAATGCTTTAAAGTTGGATAGCTGGCAGTGAGTTGAAAGCCGTTTAGCAAAGCAGTTTATTGTCATGCCAAAGTCACCCGGGCGGTCCCGGAAATATGAGAATATCATCATAGCTCTTTTAGCCACTGCAGAGAACACGCGATTTCTACTTTTGGCAACAGCAAATACTTCAATAAGTATCTGAGGCATTGTTTCGGGTTTGGGGGCCTTAAATCTCGCACTATGGCGGAATTCCAAGCTGTAATAATGGCAGCGGGCAGTGGTTCCCGCATGTATCCCATCAGCGAAGACATCCCTAAAGCTCTACTGCCTGTAGGGAACCTGCCACTAATATGGTATCCTATCAACACACTCGAAAAGGCGGGTTTCGAAGAAATTATAGTTGTCACGCTAGAAGCAGAAGCAGCAGAAGTCTCTCATGCATTGACCATGTATTGTAATCCAAAACTCAAGTTTGAGCTCAAAACAATCCCTGATGACATTGACATGGGTACTGCAGATTCTCTTCGACATATTAAAGATGTGATTGAGaaagaTGTAATTGTCATTAGCTGTGACCTCATCACAGACCTCCCACTACATCGTCTGGCTGACATTCATCATACATATGACGCATCAGTCACTGCTCTTCTTGCGCCCGTTCCCGAGACTAGTGCTGACAGAGAGGCAGCAAGTAATCCTAaagcaaagaaaaagaagcaaCAGATAGTTCAAAAGCACTATATTGCTCTGGATTCAAAAGAAAGCAGACTTCTGTTTTGTGCATCTGAAGCAGATCTAGAAGAAACATTAATTGTTCGTAAAGCATTACTGAAAAGGTACCCTTGTATAAATATTGTTACCAGACTGGTAGATACTCACTTGTACATCATGAAGAAGTGGATCATAGATTATCTTGTTCAAAATAAATCAATTTCAACTATTAAAGGAGAACTGATTCCATTTTTGGTGAAGAAGCAGTTTCAGAAGCAGAAAAAAGATAAAGTTGGGCTTCCACTAAATGATACAGCATCTATCTCCATGGCAGGTGATGACCGAAAAACAGACGTTTTAAGCTTTTTAGCAGAAGATGAGATCACTGTTGCGACCAGGGGCCTCTCATCCTGGAGTGGGACATGTACAACAGATAAGGGTGATGGGAACGCCTTACGGTGCCACGCCTATGTGATGGAGAGTGGTCTGTGTCTAAACGCCAACACATTACAGCTTTACATGGAAGCAAACAGACTGATTCCCAAACAGCTTCCAAGTCTCTCATCCAAAGAAATTCCTCTTATTCACTCAACCGCAGTGATTAAGCCTAAATCACAGGTTGGCAATGACAGTATGGTGGATGCTAGTGTTTCCATTGGAGATAAAGTATCTGTAAAGCGGTCCGTTATAGGCAAACACACCACTATAGGAGATAAAGTCAAGATTAGTAACTCTGTCATCATGGATCATGTCACCATCAAAGATGGGTGTAACATCACTAGTTCTATTGTATGTAACAATGCCTACATCAAGGAGAATGCAAGCCTGAAAGACTGTCAAGTTGGCAACTCACACACTATTGGTGAAGGAGAGTGCAAGGGAGAGGCATTAGTTGCTGATCAGCTTATGGATTTTGACTAGCCAAGGCTGCACTAGCTGCCCTTTTGTGaagataacaacaacaaaaaaaaacaaagaatgcCATTCACAAAAGAACCCAGAAAAATACAATGAGTCTGTGGCTGTCCACTTTTGACTCCTTAAATTATTGTAGGCAACAactttaaaattaaataaaggGATCAATAGCATACCAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A5PJI7	Translation initiation factor eIF2B subunit gamma OS=Bos taurus OX=9913 GN=EIF2B3 PE=2 SV=1
Q4R6T3	Translation initiation factor eIF2B subunit gamma OS=Macaca fascicularis OX=9541 GN=EIF2B3 PE=2 SV=1
Q9NR50	Translation initiation factor eIF2B subunit gamma OS=Homo sapiens OX=9606 GN=EIF2B3 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005590 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00483 all species →	NTP_transferase	Nucleotidyl transferase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR051960 all species →	Family	Eukaryotic Initiation Factor 2B Subunit Gamma	Interproscan
IPR029044 all species →	Homologous_superfamily	Nucleotide-diphospho-sugar transferases	Interproscan
IPR005835 all species →	Domain	Nucleotidyl transferase domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45989 all species →	TRANSLATION INITIATION FACTOR EIF-2B SUBUNIT GAMMA	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0002183 all species →	Biological Process	cytoplasmic translational initiation	Interproscan
GO:0003743 all species →	Molecular Function	translation initiation factor activity	Interproscan
GO:0005085 all species →	Molecular Function	guanyl-nucleotide exchange factor activity	Interproscan
GO:0005851 all species →	Cellular Component	eukaryotic translation initiation factor 2B complex	Interproscan
GO:0032045 all species →	Cellular Component	guanyl-nucleotide exchange factor complex	Interproscan
GO:0009058 all species →	Biological Process	biosynthetic process	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
K03241	EIF2B3; translation initiation factor eIF-2B subunit gamma	-	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_048579656.1 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

41TPM > 0

16Conditions

25.5Max TPM

16.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	18.97	20.72
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	18.54	22.33
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	17.77	20.26
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	18.42	19.30
whole 6 week old aboral regenerate · regenerate uncut	3	3	19.13	23.40
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	11.01	18.57
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	13.83	21.03
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	16.88	23.23
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	12.78	19.46
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	19.90	22.37
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	19.75	19.94
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	14.90	25.47
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	22.39	25.45
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	13.41	20.97
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	20.05	22.69
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	6.56	19.68

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	20.72
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	18.35
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	17.85
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	22.33
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	17.51
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	15.76
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	20.26
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	19.28
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	13.76
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	19.30
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	18.51
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	17.43
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	23.40
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	17.12
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	16.87
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	18.57
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	14.47
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	21.03
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	20.47
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	0.00
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	23.23
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	17.57
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	9.84
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	19.46
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	18.87
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	22.37
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	19.95
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	17.39
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	19.94
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	19.72
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	19.59
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	25.47
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	19.24
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	0.00
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	25.45
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	20.91
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	20.81
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	20.97
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	19.27
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	22.69
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	18.73
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	18.72
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	19.68
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.