Gene detail

Detailed information of BRAKERKREP00000022934.1 in Hydra viridissima

Genomic Location: QPEY01000524.1:1952331...1955095
NR annotation: WP_073103148.1, L-aspartate oxidase [Candidimonas bauzanensis]
Species Hydra viridissima · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERKRET00000022934

ATGGATAGCGCAGCTGGCAAAACCATTGAATTCGATCTCCCTGTTCCTGATCAAAGTAAGGGGGGTGCTTGCTCTGTAGGCCAAGCTTGGGCGCGCTTGCCCGCCTCTGTATCGCCCGCGCAGCAACTAAGCTTACAGCAGCATATCCGCGACTTTCTACGGCGCGAAGACGCAGTGTTAGTGGCGCACTACTATGTGGATGCGGTGCTACAAGAGTTAGCAGAAGAGACAGGGGGGTGTGTCGCGGACTCGTTGGAAATGGCACGCTTTGGTCGCGACCATACGGCGGGTACTTTGGTGGTGGCAGGCGTACGCTTTATGGGTGAGACGGCCAAGATCCTTAGTCCGCACAAGCGTGTGCTCATGCCCGATCTCGAGGCCACTTGTTCGTTGGACCTAGGTTGCCCGGCAGAGACCTTTAGCGCTTTTTGCGATGCGCATGCCGATCGTACGGTCGTGGTGTATGCCAATACCAGCGCGGCTGTAAAGGCGCGGGCCGATTGGGTGGTGACTTCAGCCATTGCGCTCGATATTGTGGGCCATCTGCATGCTCGgggagaaaaaatattatgggCGCCCGATCGACACTTGGGCGCCTACATCCAGCGCCAGACGGGTGCCGATATGCTGCTGTGGCAAGGCTCTTGCCTGGTGCATGACGAGTTTAAAAGTGCGGAGCTAGAACTGCTGCGCCAAGAACTGCCGCAGGCCAAGGTATTAGTACATCCGGAATCGCCGGCAGCGGTGGTGGCTCAGGCTGACGTAGTGGGCTCTACCAGTCAGCTTATCGAGGCTGCCCGCAAGCTCGCTGCGCCGCAATTCATCGTCGCCACCGATCAGGGTATTTTGCATAAATTGCGGTTGGCTGCGCCTGGCAAGACTTTTATTGCCGCGCCCACTGCCGGCCATAGCGCCACTTGCAAAAGCTGTGCCCAGTGTCCTTGGATGGCCATGAACGGCTTGGCAAACTTGGCCGCTGTGCTGGAGCATGGCCACGGCGAAATTCTCTTAGAAGCCGACTTAGCGGCGCGTGCGCGCGTGCCGCTAGACCGCATGCTTGCCTTCGCTGCGCGTAAACAGCAATTCGGTGGGGGTCTGGCCGCGCTGACGGTGGCCCTTCATTTGCCGCCCGGTCTACGTGTAGGGCTGCTCGCAAAAGGGCGCTTAACCGAAAGCGCCAGCCAGCGTGCCCAAGGCGGTATTGCTGCCGTCCTAGACGAGGCTGACAGTATCGAGCAGCACATCGCCGATACGCTCACTGCAGGCGCCGGCTTATGCAACCCTAGCGTGACCCGGCATATTGTCGAAAATGGGCCTAATGCTATCTATTGGCTGCGCGAGGTCGGCGTACCTTTTACGCGCGATGCCAACGCTACCCAGGGGTTGCACCTTGCTCGAGAAGGTGGGCACAGCCGCCGCCGCATTGTCCATGCCACTGACATCACTGGCCAGGCGGTAATTCGCACCTTGATAGCGCGCCTGCAGCAGCAGACCAATATACGGTTGTTCGAGCACCATCAAGTCATCGATTTACTCACTGCTGAAGGTCGCTGCGTAGGAGTGCAGGTACTTGATATAGCCGGCGGCAGCGTTTTAACACTGCGCGCAGCTAATACAGTGCTAGCTACGGGCGGGGCCAGCCGCCTCTATCTGCACAGCACTAATCCCGATGCCGCGACAGGCGACGGAATCGCGCTAGCTTGGCGGGCCGGCTGCCGTGTCATGAATTTAGAATTTATCCAGTTTCATCCCACTAGCCTTTACGCGCCGCAAGCCGGCGGTGAGGCTTTTCTGATTTCGGAAGCGGTGCGTGGGGAAGGCGGTTTGTTATGCCTGCCGGATGGCAGCCGCTTTATGCCGGCCCACGATGCGCTTGGCGAGCTGGCGCCGCGTGACGTAGTGGCGCGCGCTATCGATATAGAAATGAAAACCCGTGGCTTAGCGTGCGTGTATTTGGACATCACGCATCAGCCAGCGGCTTTTTTGCGAGCCCATTTTCCTACCATTATGGCGCGTTGTTGGGAGGCAGGGATAGATCTGACGCGCAAGCCCATTCCGGTCGTGCCCTCAGCTCACTATACGTGCGGGGGAATTAAAACCGACTTGGCTGGGCGCACCGATTTGGCCGGATTGTATGCGGTGGGTGAAACTGCTTGCACCGGCCTACACGGCGCCAACCGTTTAGCGAGTAATTCCTTATTGGAATGCGTGGTGGTAGGCCGGGCCTGTGCGCAGGCGATTGAAGGCGAAGCAACCTCTAGTCGCGCGCTTGGGGCTGGTGGTGGACTAACGCGTGGCGTTGGCTCTAAACACTCTACCTTGGCTAGCGTCGCCCAATACCGGAACCAACTGCGCCAACTAATGTGGGATAAGGTGGGGATCGTGCGCAGTAACGAAAGCCTGGCCGAGGCTGCTGCCCAAATTAAATGTTTGCGCACTGTCGATGGCTGGGAGCCAGATGCCATGCTGAGCCGCGCCGATCTAGAGTTGCGCAATATGCTAGATGTAGCTGATCTCGTTGTGCGTAGCGCTCAGGCCCGGCAGGAGAGTCGCGGCCTGCATTACAACAGGGATCAACCACAAATTTTGCCGCAAGCAGTGCCAACCGTGCTGCAGCGGAGGGAAGCAGCGCAGGCCGTTGCATAA

Transcript

BRAKERKRET00000022934

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8XWM7	L-aspartate oxidase 1 OS=Ralstonia nicotianae (strain ATCC BAA-1114 / GMI1000) OX=267608 GN=nadB1 PE=3 SV=1
B2JDZ5	Quinolinate synthase OS=Paraburkholderia phymatum (strain DSM 17167 / CIP 108236 / LMG 21445 / STM815) OX=391038 GN=nadA PE=3 SV=1
Q0BCL4	Quinolinate synthase OS=Burkholderia ambifaria (strain ATCC BAA-244 / DSM 16087 / CCUG 44356 / LMG 19182 / AMMD) OX=339670 GN=nadA PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0013170 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00890 all species →	FAD_binding_2	FAD binding domain	Family	Interproscan
PF02445 all species →	NadA	Quinolinate synthetase A protein	Family	Interproscan
PF02910 all species →	Succ_DH_flav_C	Fumarate reductase flavoprotein C-term	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR037099 all species →	Homologous_superfamily	Fumarate reductase/succinate dehydrogenase flavoprotein-like, C-terminal domain superfamily	Interproscan
IPR027477 all species →	Homologous_superfamily	Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain superfamily	Interproscan
IPR036188 all species →	Homologous_superfamily	FAD/NAD(P)-binding domain superfamily	Interproscan
IPR003953 all species →	Domain	FAD-dependent oxidoreductase 2, FAD binding domain	Interproscan
IPR005288 all species →	Family	L-aspartate oxidase	Interproscan
IPR003473 all species →	Family	Quinolinate synthetase A	Interproscan
IPR036094 all species →	Homologous_superfamily	Quinolinate synthetase A superfamily	Interproscan
IPR015939 all species →	Domain	Fumarate reductase/succinate dehydrogenase flavoprotein-like, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR42716 all species →	L-ASPARTATE OXIDASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0008734 all species →	Molecular Function	L-aspartate oxidase activity	Interproscan
GO:0009435 all species →	Biological Process	NAD biosynthetic process	Interproscan
GO:0034628 all species →	Biological Process	'de novo' NAD biosynthetic process from aspartate	Interproscan
GO:0008987 all species →	Molecular Function	quinolinate synthetase A activity	Interproscan
GO:0051539 all species →	Molecular Function	4 iron, 4 sulfur cluster 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

No KEGG orthology assignment for BRAKERKREP00000022934.1.

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000022934.1 across 29 RNA-seq samples of Hydra viridissima. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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

0TPM > 0

7Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
whole body	18	0	0.00	0.00
Whole	6	0	0.00	0.00
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
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134058	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134061	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134062	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134063	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902
ERR13389755	unannotated	not recorded	not recorded	not recorded	ERP162636

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.