Gene detail

Detailed information of XP_032238751.1 in Nematostella vectensis

Genomic Location: NC_064039.1:16409572...16424355
NR annotation: XP_032238751.1, eukaryotic peptide chain release factor subunit 1 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_032382860.2

TTCCCAAGTAAATAGTATTTTGAGGGAAGTGACAGTCTACTGAAAAGATGGACCCATTCCTCCTTCTTTATCGGGCCTTCAGAGCGGAAGGGAGAGCGATCGTGCGAAGGAAAACGTTCTGTAAATGGTGGGTTTCAGGCAGAGCTCCAGATGGCAGAATGCAGCATTACCTCTTGACTGTCAGAGATGaccaataaataaatgatttaCCAGATTTACCAGTCTCTGTGGGCCAGAACCGTGATGAATTTATTTCAAGGACCAATGCTGCTGACAATGGTGAACTTTTACATTCAGATTaaATGGAACAAGCATGATCTCTCTGATCATTCCACCAAAAGACCAGATTTCCAGAGTTGCTAAAATGTTAGCAGACGAGTTTGGCACGGCATCTAATATCAAGAGCAGAGTGAATCGTCTGTCTGTATTGAGTGCCATCACTTCTGTACAGCAGCGACTAAAACTCTATTCTAAAGTTCCCCCAAATGGTCTTGTAGTGTACTGTGGAACAATTGTCACAGATGACGGCAAAGAGAAGAAAGTCAATATAGATTTTGAACCATTTAAGCCAATCAACACATCATTATATCTTTGTGATAACAAGTTTCATACTGAGGCATTAAATGCCTTACTAGCAGATGATAACAAATTTGGGTTCATCGTGATGGATGGTAATGGTGCATTGTTTGGTACTCTATGTGGTAACACCAGAGATGTACTTCACAAGTTTACAGTTGATCTGCCCAAGAAACATGGTCGTGGGGGACAGTCTGCCCTTCGTTTTGCTCGTCTCCGGATGGAGAAGCGCCATAATTATGTGAGAAAAGTTGCGGAGACAGCAGTACAGCTATTTATTACAAATGACAAGCCGAACATTACAGGGATGATCCTAGCTGGTTCAGCAGATTTCAAGTCAGAACTGAGTCAATCAGATATGTTTGATCAGAGACTGCAAGCTAAAGTTCTCAAGCTAGTGGATGTGTCATATGGTGGAGAGAATGGATTTAATCAGGCAATTGAGCTGGCCTCAGAAGTTCTTGCTAATGTGAAGTTTATTCAAGAAAAGAAACTGATAGGGCGTTATTTTGATGAAATATCCCAAGACACtggaaaatattgttttggtGTTGCTGATACACTCAAGGCATTAGAGATGGGTGCGGTTGACATTCTCATTGTCTGGGAAAACTTGGACATTCAAAGGATAGTACTCCGTAATCATCAAACAGATGAGGACACAGTTCTCCACTTGAACCCAGAACAGGAAAAAGATAAAACACATTTTATTGATAGTGAGtCTGGTGTTGAGCTTGAGTTAGTCGACAAAAACCCACTTCTAGAATGGCTGGCAAACAATTACAAGAACTTTGGTGCCACTCTTGAAATCATCACAGACAAGTCCCAAGAGGGGGCCCAGTTCTGTAAAGGATTCGGAGGAATTGGAGGCATTCTCAGGTACCGCGTGGATTTCCAAAGTATGGAGTATGATGGTGACCCGCTGGAAGATTATGATGACGAAGAGTACTAAACTACTCTTTACTTATCACTAAACGCTTATGGCAGAAGGACAATGTGCAAGAATAGACGTTTGCAGAGCAGCGATAAGGTTGAAAGCAGTGGTTGTAATTTTCTCAAAGACTAGACCGAGTGCCAAACGGTGTAAAAGAGATGAACAAAGGGTGTGTCGAAGATTGGAAGTGTTTTGTTTGAAGTGCGTGGGAATAGACATAATCCATAAGACACTTCATGCATTAGTAGAGTTGGATACATTGCATAAGGTTGTGAGATGAGACAACCTCTGTGGAAGAAAGAAAAGTCCTGTTCTGATGTCAATCGGTTGTCTCAAATTTGAGAACATCTGATTGGTATGAGCCTAACTTTGTAGCTTTTATGTTTGTCAATGAATCAAAAATTGTGATTATCCCATTCTGGCCAGTTGACCTTCTTGCACTGTGTCTTGGTGACCATGCTAACGCGGTTCACATTGCGAATCTCAGCAGAAGAGATATTTTACAAGACGGACTATGGAACTGTAACTGAAATGCTAACTCAGTCCACATGACATGATCTAAACATTTTCcaataaaaaatggatttaaaATGGTTAAATGGCACGTCTTGCTGAATGAAAGATTAGCATTTTGTAAACACGCCTCAGCAGGAGAGATTTCAGACGTTACAAAGGTGATAACCATAACGCCCACGCTCGATATAAACTAAAGACATGAAACATATTACTTTTAGTCTAGTCTCTGTCCCCGAATTACGGTAGATTAGAACTGGAACAGAGCCTCGTCTTAAAGTTTTATGTCTTGTGAGTTATTGGGATATTATGTTTCACGTTTCAACTCAACTTGTTACGGCTGCATAGCATGGTTAGCGGTTCTTGTTCTTCGTTTTGAAATTTCAGTAAAACTTGAGGTTGATATCAATAACTGACCGCACCTTTGTACCTGTATCTTTACAAATCCCCTTACGTGACGGGTCGAGAACAATTTAATAATATTTCTGGCAGGATTGtgagaaataaaggaaaacaAGTAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9GR88	Eukaryotic peptide chain release factor subunit 1 OS=Polyandrocarpa misakiensis OX=7723 GN=ERF1 PE=2 SV=1
Q9VPH7	Eukaryotic peptide chain release factor subunit 1 OS=Drosophila melanogaster OX=7227 GN=eRF1 PE=1 SV=2
P62498	Eukaryotic peptide chain release factor subunit 1 OS=Xenopus tropicalis OX=8364 GN=etf1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005436 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03465 all species →	eRF1_3	eRF1 domain 3	Domain	Interproscan
PF03464 all species →	eRF1_2	eRF1 domain 2	Domain	Interproscan
PF03463 all species →	eRF1_1	eRF1 domain 1	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR042226 all species →	Homologous_superfamily	eRF1, domain 2 superfamily	Interproscan
IPR004403 all species →	Family	Peptide chain release factor eRF1/aRF1	Interproscan
IPR005142 all species →	Domain	eRF1 domain 3	Interproscan
IPR005141 all species →	Domain	eRF1 domain 2	Interproscan
IPR029064 all species →	Homologous_superfamily	Ribosomal protein eL30-like superfamily	Interproscan
IPR024049 all species →	Homologous_superfamily	eRF1, domain 1	Interproscan
IPR005140 all species →	Domain	eRF1 domain 1/Pelota-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10113 all species →	PEPTIDE CHAIN RELEASE FACTOR SUBUNIT 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0002184 all species →	Biological Process	cytoplasmic translational termination	Interproscan
GO:0003747 all species →	Molecular Function	translation release factor activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006415 all species →	Biological Process	translational termination	Interproscan
GO:0016149 all species →	Molecular Function	translation release factor activity, codon specific	Interproscan
GO:0018444 all species →	Cellular Component	translation release factor complex	Interproscan
GO:1990825 all species →	Molecular Function	sequence-specific mRNA 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
K03265	ETF1, ERF1; peptide chain release factor subunit 1	-	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_032238751.1 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

43TPM > 0

16Conditions

50.8Max TPM

22.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	21.24	23.83
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	17.43	20.51
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	17.14	18.47
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	35.49	42.65
whole 6 week old aboral regenerate · regenerate uncut	3	3	16.66	18.65
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	28.11	50.83
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	22.46	26.00
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	30.36	32.14
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	27.74	35.56
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	32.72	36.27
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	23.98	27.96
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	23.78	27.93
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	23.84	26.88
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	17.76	32.96
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	16.23	25.01
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	7.28	21.85

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	23.83
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	23.29
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	16.60
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	20.51
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	17.88
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	13.90
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	18.47
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	17.14
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	15.80
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	42.65
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	36.34
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	27.46
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	18.65
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	16.96
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	14.38
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	50.83
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	33.52
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	26.00
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	21.76
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	19.64
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	32.14
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	31.97
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	26.97
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	35.56
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	28.05
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	19.60
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	36.27
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	31.77
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	30.12
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	27.96
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	22.44
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	21.56
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	27.93
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	21.95
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	21.45
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	26.88
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	26.64
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	17.99
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	32.96
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	20.31
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	25.01
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	23.67
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	21.85
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.