Gene detail

Detailed information of BRAKERKREP00000023920.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: CFN73305.1, threonyl-tRNA synthetase [Bordetella pertussis]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000023920

ATGGTACAGATCACATTGCCTGACGGCTCACAGCGGGAGTTTCCCGCGTCCGTAACGGTAGCGGAAGTTGCGCGATCGATCGGCCCTGCGTTGGGTAAGGCGGCGTTAGGAGGCCGAGTTAATTTCGACGGTCTGCAGCCGAAATTGGTGGACACGAGTTTTATTATCGACCGCGATGCTGGGCTAACGATTATTACCGCCAAGGATCCGGCAGGGCTGGACATGATTCGTCATTCCACGGCGCATTTGCTCGCCTATGCCGTCAAAGAGCTATTTCCGCAAGCGCAAGTTACCATCGGGCCAGTTATAGATAACGGCTTCTATTACGACTTTTCATACGAGCGCCCGTTTACGCTAGACGACCTCGCAGCTAtcgaaaagaaaatgattgaattGGCCCATAAAGACGAGCCAATTATGCGTGAGGAATGGGCGCGCGACCAAGCAGTGGacttttttttgagtattgGCGAGAAATATAAGGCCGAGATTATCGCTTCGATTTCCGCAAATGAGCCGCTCAGTCTTTATCGCGAGGGCGACTTCATCGATCTGTGCCGGGGGCCCCACGTGCCATCGACCGGTAAGCTAAAAGTATTTAAGCTCATGAAGGTAGCGGGCGCGTACTGGCGCGGCGACAGCAACAATGAAATGCTCCAGCGTATTTATGGCACCGCTTGGGCTACCAAGGAGCAGCAGGACGCTTATTTACACATGCTGGAAGAGGCCGAGCGGCGCGATCACCGTAAGATTGGTCGCGAGCTtgatctttttcattttcaggaCGAAGCACCTGGGCTCATCTTTTGGCATCCCAAGGGTTGGACGCTGTGGCAGCAAGTTGAGCAATATATGCGGGCGGTATACCGCGACCATGGCTACCAGGAAGTAAAAGCGCCACAAATATTGGATATCTCCCTTTGGAAGAAAACTGGGCATTGGGACAATTATCGTGAAAATATGTTTACGACCGAGTCCGAGAATCGGATATATGGTCTCAAACCCATGAACTGTCCGGGTCACGTGCAAATTTTTAACGCTGCTTTGCACTCCTACCGCGAGTTGCCGCTGCGCTACGGTGAATTTGGTCAGTGCCATCGCAACGAACCCTCTGGCTCCCTGCATGGCATGATGCGAGTGCGGGGTTTCACGCAAGACGACGGCCACATCTTTTGTACTGAAGACCAGCTGCAACATGAATGCGCCGATTTCACGCTGCTACTACAAAAGGTGTATCGCGACTTTGGTTTTGACGCGGTGTTGTACAAGGTGGCGACGCGGCCGGCGAAGCGGATTGGCAGCGATGAAGTTTGGGACAAGGCGGAAACCGCTCTGATGGAAAGCTTGCGTAGCGCTGGCTGTGAGTTTGAAGTATCGCCAGGCGAGGGCGCTTTTTACGGTCCTAAGATCGAGTACACCTTAAAAGACGCTATCGGTCGGCATTGGCAGTGCGGCACGCTACAGGTCGATTTTTCCATGCCCGTACGCTTAGGTGCCGAGTACGTGGATGCAAACGATCAGCGGCGCGCGCCGGTCATGCTGCACCGGGCCATCTTAGGTTCGCTTGAGCGTTTTATAGGCATGTTGATCGAAAATCATGGCGGCGCCATGCCTCCATGGTTAGCGCCCGTGCAGGCCGTTGTATGCTGTATTTCAGAACTGTCGGCCGATTATGCAGCACAAATTACGCAAAGCTTGAAAAAACAAGGCCTTAGGGTCGAATCTGATTTGCGTGGCGAAAAAATCACTCGTAAAATTCGCGAGCATAGCCTGCAAAAAGTTCCGTATATCCTCGTCGTCGGCGACAAGGAAAAACAGAACGgaGTTGTCAACATCGCCACTGAAAAAGCCATACGCATCAACGGTGAAATCCGCGTTCCCGAGGTGCGCCTGATAGGAGTTGACGGAGAGCAGTTAGGGATCGTGAAGATCGCCGATGCGCTCCGTCTGTCTGAGCAAAGTGACGTAGATCTGGTGGAAATCGCGCCGAACGCTGAGCCGCCGGTTTGTCGTCTAATGGATTACGGCAAATTCAAGTACCAAGAACAGAAGCGCCAATCCGAAGCCCGTGCCAAACAAAAGGTTATCGAGGTCAAGGAAGTTAAATTCCGCCCGGCTACCGACGAAGGGGATTACCAAGTGAAGTTGCGCAATCTGCGCCGCTTTCTGGAAGAGGGCGACAAAGCCAAGGTTACATTGCGCTTTCGGGGCCGCGAAATGGCTCACCAGGAGCTGGGCATGCGCGTACTCGAGCGCGTGCGCGACGATCTGAACGAATTAGCGCAGGTTGAGGCCATGCCCAAACTGGAAGGTCGTCAGATGGTAATGGTGTTGGCCCCCCACCCGTTGCCTTTGCTTAAGGCGTATAAAGACAGTTCCGTCGCTATGATGCGGGCGCTGGCCGCACGTGGACACGCCTTAAGCGTGGCGATGCAGGGCGACATTTATATCGAAGGTGGGCGAGTCAGCGCTAACGCTACTTCAATTGAAATGATGGCCGGTGCCGATTTGCACGGTCACGCCTGGTGGCGAGAATTGGCGTCGGCGACAGACCAGGAGCTGGCCGGATTCGACGCAATCGTTATGCGCAAAGATCCTCCGTTCGACATGGAATACGTTTATTCCACGCACCTACTCGAATACGCAGAAAGTCAGGGCGCGCGCGTATTCAATAGTGGGGCAGCCATCCGTAACCATCCGGAAAAACTGGCTATTACCGAATTTGCTGAGTTTGCTGCGCCGACCTTAGTCAGCCGCAGCATAAATCGCCTGAAGGCGTTTCACCGGCGCCATCAAGACCTTATCGTCAAGCCACTCGATGGCATGGGTGGAACAGGTGTGTTTCGGTTGCAATCTCAAGAGCCTAATCTGAATGTCATATTGGAAATGCTTACTGATAACGGTAGGCGAACCATTATGGCGCAGCGTTACCTTCCTGAAATTTCCGCCGGCGACAAACGGATTTTGCTGATTGATGGCAAGGCGGTGCCATACGTATTGGCGCGTATTCCTCCCACGGGCGAAACGCGTGGCAATCTGGCAGTGGGTGGACATGGCGTGGCTCAGCCACTTTCCGAGCGCGATGGTCGCATCGCCGAGGCCGTAGGCTTACGCTTAGCCCAGCGGGGATTGCTGCTAGTGGGCTTGGACATGATTGGGGATTACATCACTGAGATTAACGTCACCAGCCCGACTTGTTTTGCGGAAATCGCTGAGCAAACTGGGTTTGACGTGGCGGGTATGGCGCTGCGCGATTGCGCCAGCCATGTCATGGGTAATGTGACCGACTTGGTGACGGTCCATGATATTGGGCCTGACGCCACGCCGGATGCGCTGGCTCCGCAAATTTTGCAGGATATTCTGCACGCCGATCAAGGCGGTGGTGTGTTAGTTCTAACAGACCTTATCGGCGCCACGCCTGCGAACATCGCTAAGCGCGCAGTGGCAGCTGCCCAAACGAAAGGGGCACAGTGCAGCCTATTAGCGGGGCTGAATATGCCTATGCTTTTACGCGCATTAACGTATCGCCATCTACCCCTGGCCGAGCTGCGGGAAAAGGCCTTAGCAGGCGGTGTAGGAGGCGTCTTGCCTGTAGACTAA

Transcript

BRAKERKRET00000023920

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A9IRH6	Threonine--tRNA ligase OS=Bordetella petrii (strain ATCC BAA-461 / DSM 12804 / CCUG 43448) OX=340100 GN=thrS PE=3 SV=1
Q2L2M5	Threonine--tRNA ligase OS=Bordetella avium (strain 197N) OX=360910 GN=thrS PE=3 SV=1
Q7WKF7	Threonine--tRNA ligase OS=Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50) OX=257310 GN=thrS PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002442 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05198 all species →	IF3_N	Translation initiation factor IF-3, N-terminal domain	Domain	Interproscan
PF03129 all species →	HGTP_anticodon	Anticodon binding domain	Domain	Interproscan
PF02824 all species →	TGS	TGS domain	Domain	Interproscan
PF00707 all species →	IF3_C	Translation initiation factor IF-3, C-terminal domain	Domain	Interproscan
PF00587 all species →	tRNA-synt_2b	tRNA synthetase class II core domain (G, H, P, S and T)	Domain	Interproscan
PF07973 all species →	tRNA_SAD	Threonyl and Alanyl tRNA synthetase second additional domain	Domain	Interproscan
PF02951 all species →	GSH-S_N	Prokaryotic glutathione synthetase, N-terminal domain	Domain	Interproscan
PF03610 all species →	EIIA-man	PTS system fructose IIA component	Family	Interproscan
PF02955 all species →	GSH-S_ATP	Prokaryotic glutathione synthetase, ATP-grasp domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019814 all species →	Domain	Translation initiation factor 3, N-terminal	Interproscan
IPR011761 all species →	Domain	ATP-grasp fold	Interproscan
IPR012676 all species →	Homologous_superfamily	TGS-like	Interproscan
IPR013815 all species →	Homologous_superfamily	ATP-grasp fold, subdomain 1	Interproscan
IPR004154 all species →	Domain	Anticodon-binding	Interproscan
IPR004095 all species →	Domain	TGS	Interproscan
IPR001288 all species →	Family	Translation initiation factor 3	Interproscan
IPR018163 all species →	Homologous_superfamily	Threonyl/alanyl tRNA synthetase, class II-like, putative editing domain superfamily	Interproscan
IPR045864 all species →	Homologous_superfamily	Class II Aminoacyl-tRNA synthetase/Biotinyl protein ligase (BPL) and lipoyl protein ligase (LPL)	Interproscan
IPR002320 all species →	Family	Threonine-tRNA ligase, class IIa	Interproscan
IPR019813 all species →	Conserved_site	Translation initiation factor 3, conserved site	Interproscan
IPR019815 all species →	Domain	Translation initiation factor 3, C-terminal	Interproscan
IPR006284 all species →	Family	Glutathione synthetase, prokaryotic	Interproscan
IPR004701 all species →	Domain	Phosphotransferase system, mannose-type IIA component	Interproscan
IPR036787 all species →	Homologous_superfamily	Translation initiation factor 3 (IF-3), N-terminal domain superfamily	Interproscan
IPR002314 all species →	Domain	Aminoacyl-tRNA synthetase, class II (G/ P/ S/T)	Interproscan
IPR047246 all species →	Domain	Threonine-tRNA ligase, class IIa, anticodon-binding domain	Interproscan
IPR006195 all species →	Domain	Aminoacyl-tRNA synthetase, class II	Interproscan
IPR012947 all species →	Domain	Threonyl/alanyl tRNA synthetase, SAD	Interproscan
IPR033728 all species →	Domain	Threonine-tRNA ligase catalytic core domain	Interproscan
IPR004215 all species →	Domain	Prokaryotic glutathione synthetase, N-terminal	Interproscan
IPR036788 all species →	Homologous_superfamily	Translation initiation factor 3 (IF-3), C-terminal domain superfamily	Interproscan
IPR036621 all species →	Homologous_superfamily	Anticodon-binding domain superfamily	Interproscan
IPR036662 all species →	Homologous_superfamily	Phosphotransferase system, mannose-type IIA component superfamily	Interproscan
IPR016185 all species →	Homologous_superfamily	Pre-ATP-grasp domain superfamily	Interproscan
IPR012675 all species →	Homologous_superfamily	Beta-grasp domain superfamily	Interproscan
IPR004218 all species →	Domain	Prokaryotic glutathione synthetase, ATP-binding	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11451 all species →	THREONINE-TRNA LIGASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003743 all species →	Molecular Function	translation initiation factor activity	Interproscan
GO:0006413 all species →	Biological Process	translational initiation	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0046872 all species →	Molecular Function	metal ion binding	Interproscan
GO:0000166 all species →	Molecular Function	nucleotide binding	Interproscan
GO:0004829 all species →	Molecular Function	threonine-tRNA ligase activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006435 all species →	Biological Process	threonyl-tRNA aminoacylation	Interproscan
GO:0004363 all species →	Molecular Function	glutathione synthase activity	Interproscan
GO:0006750 all species →	Biological Process	glutathione biosynthetic process	Interproscan
GO:0009401 all species →	Biological Process	phosphoenolpyruvate-dependent sugar phosphotransferase system	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0004812 all species →	Molecular Function	aminoacyl-tRNA ligase activity	Interproscan
GO:0006418 all species →	Biological Process	tRNA aminoacylation for protein translation	Interproscan
GO:0043039 all species →	Biological Process	tRNA aminoacylation	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

No KEGG orthology assignment for BRAKERKREP00000023920.1.

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000023920.1 across 29 RNA-seq samples of Hydra viridissima. 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.

29Samples

3TPM > 0

7Conditions

0.1Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	0	0.00	0.00
Whole	6	3	0.02	0.06
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	0	0.00	0.00
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	0	0.00	0.00
symbioic hydra M9 strain · symbioic hydra rep1	1	0	0.00	0.00
symbioic hydra M9 strain · symbioic hydra rep2	1	0	0.00	0.00
unannotated	1	0	0.00	0.00

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134058	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134061	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134062	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134063	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	0.06
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	0.05
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	0.04
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	0.00
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	0.00
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	0.00
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	0.00
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	0.00
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	0.00
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	0.00
ERR13389755	unannotated	not recorded	not recorded	not recorded	ERP162636	0.00

Source: CnidoSite RNA-seq expression matrices (HVIRI_TPM, StringTie quantification over 29 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.