Gene detail

Detailed information of BRAKERKREP00000023019.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: WP_053244975.1, FAD/FMN-binding oxidoreductase [Achromobacter sp. DMS1]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000023019

ATGTTGGCTTTGCCAGAGGTTGGCCTCAGtgccatcttttttataagcGTGGTGTCGGCGACGCTTTTACCGCTGGGATCTGAGCCAGCTGTGTTCGCCTTTGTTAAGGTGACGCCGGATATGTTTTGGACGGCGATTTTGGTGGCCACCGTGGGCAACACAGTCGGTGGTGCTATTAGTTACGGTATGGGTTTGGCGGCACAGCGTAGCTTTACCCACTGGAAGCAGGCGCAAGCTCGGCATTCCCATGACAGTACCGCCGCCCCTATTACGAACCAGCAGCCGCGTGGCATGTCGGGCCGCTGGCACGGGCACGCCGGCCAATGGTTGCATCGGTTAGGGCCGCCGGCGTTGCTACTATCTTGGCTGCCGGCCATAGggCCTGCACTTTTTATGAATGCCCCATTTGCTAGCCATATTGTCGACCCGGCAGCCCCGCCCGGCGCCGGCGCGCGATTGCGCGAAATCCCGTACAACTACACCTCGTTTTCTGATCGTGAAATTGTCGGTTGTTTACTGGACGAAGAAGCCTGGCAATTATTAGCCGATCTACGTACTGAGCGTCGTACCGGACGTTCGGCGCGCATGTTGTATGAGGTCCTGGGCGATATTTGGGTGGTCCGGCGCAACCCCTATCTGCAGGACGATTTGCTTGATAACCCGAAGCGGCGGGCGCAGCTTATTGAAGCCCTGCATCATCGGCTGAGTGAAATTGACCGGCGACGCGATCCGACGGCATCTCAGGACGCACAGGATTTTAAGGTGGCACTGCTGCTGGAGCGGGCGCGGGCGGCGATTGCTGCATTCGAAATACAATTTCAGCAGACGCGTCAGCTCCGTGCGCGGGCGCAAAAAGTTCTTGGCCGCGTCACGGCGCGCGACAACATTAAATTTGATGCGCTCTCGCGCGTGTCCCATGTTACCGACGCGACTGATTGGCGGGTGGAATACCCTTTGGTCGTGCTCACGCCGGATTCTGAAGTCGAGATAGCGGCGCTGGTGCGGGGTTGTATCGCGCTCGGTTTAACGATTATTCCGCGTGGCGGCGGCACCGGTTATACCGGTGGTGCGATCCCCCTTGCGTGGAAATCCGCTGTGATCAATACCGAGAAATTAGAGACCTTGGGCGCAGTGGAGTCCTGTTTGCTACCGGGGCTGAACCAGCCGGTGGCCACCATTTTTGCCGGCGCCGGCGTGGTGACCAAGCGGGTCTCAGAGGCGGCCGAGGGCGCGGGTTTCATATTCGCGGTGGATCCGACGTCGGCCGACGCCTCCTGCGTAGGCGGCAATATTGCCATGAATGCAGGCGGTAAAAAGGCAGTCTTGTGGGGCACGGCGCTAGATAACCTGGCATGGTGGCGCATGGTGGACCCTGACGGCAACTGGCTCGAGGTGACCCGTTTGGCGCACAATATGGGCAAAATCCATGAGGTGGAAGTGGCGTATTTTGAGCTCAAGTGGTTCGATGGCCGCGCCCAGCCTGGCGAGAAACTGCTGAAGTCCACAACGCTCACTATCGACGGCCAGCGTTTTCGCAAGCAAGGTTTGGGCAAAGACGTCACCGACAAATTTTTAGCCGGGCTGCCTGGCGTGCAAAAAGAAGGTTGCGACGGCTTAATCACATCGGCGCGCTGGGTGCTGCATCGTATGCCGCCGCATATTCGCACGGTTTGTTTGGAGTTTTTCGGCCAGGCGCGGCAAGCTATTCCCTCGATTGTCGAAGTGAAGAATTATCTAGACGGCGAGGGCAAGCGCCGGGGCGCTGTCTTGGCTGGCTTGGAGCACTTAGACGAACGTTATCTGCGTGCTGTGGGCTATGCCACCAAGAGTAAGCATGGCGTGTTGCCTAAGATGGTGCTTATCGGCGATATCGTCGGCGAAGATGAGAATGCGGTGGCGGCGGCGGCCAGTGAGGTCGTGCGGTTGGCCAATACCCGGCATGGGGAAGGCTTTATCGCCGTCAGCGCTGAGTCACGTAAGAAATTCTGGCTCGATCGTTCACGCACTGCCGCCATCGCCCGTCACACCAATGCCTTCAAGATAAACGAAGATGTGGTGATTCCCTTAAATCGCTTAGGCGAATACACCGACCATATTGAACGCATCAATATCGAACTTTCCACTCGCAATAAGCTGCAGCTATTGGATGAATTGGAGACTTGCCTTAAAGGCCCGTTGCCGCTGGATAAATCCGAAGACGTCGAGGACGCGGCCATTACCCGCGCTGAGGTGCTGGCCGAACGGACCCGACAAGCGCTGGCCTTGGTCGCCGATACACGGCGGCGGTGGCAGTGGATCCTACAGAATCTGGACTTGCCTTTGACGCAGGCCCTGCCGCATATCGCTCACGTGGGTCTAGCGCATTTACAAGTTGCGCTGGCTGAGCGCATGGCGCAACAACCGCTAGCTCGGTTGTTCGACGTCGTACAAGACCGCACCGTCCGCATATCCTGGAAAGCAGAGGTGTGGACGGAGCTACAACGCCTCTTTGCTGGCGCGGCGGGTCGACGGATTTTGGAGGTGTTGCAGCAAATTCACGCTCGTGTGCTGAAGCGTCGCGTGTTTGTCGCCTTGCACATGCATGCGGGTGACGGCAATGTGCACACCAACATCCCCGTCAATTCCGACGACTATGAAATGCTGTGCGAGGCCAATAAAGTTGTTGAACGGATTATGCGCATCGCGCGTGGATTAGATGGCGTCATCTCTGGTGAGCATGGCATAGGTCTAACCAAGTACGAATTTCTCACTGAAGCCGAATTGGCGCCCTTTCAGGACTACAAGCGCAAGGTAGATCCGCATGGCCACTTCAACGCTGGCAAGCTCATGCCGGGCGCGGATTTGCGCCGTGCTTGGACGCCCAGCTTTAATCTCATGGGGCACGAATCGCTCATCATGCAGCAAAGCGATATCGGCGCCATTTCGTCTTCCATCAAAGATTGCTTGCGTTGTGGTAAGTGCAAGCCTGTGTGTGCTACGCATGTGCCGCGGGCTAACCTGCTTTATTCGCCACGCAATAAGATCTTAGCGACGTCGCTGCTGGTAGAAGCGTTTCTGTACGAAGAGCAGACGCGGCGCGGCGTTAGCCTGAAACATTGGGAGGCGTTCGAAGACGTGGCGGACCACTGCACGGTGTGCCACAAGTGCTACAACCCTTGCCCAGTGGACATTGATTTTGGCAATGTGTCCATGCATATGCGGGCGCTGCTGCGCCGCATGGGTCGTAAGTCCTTTAACCTGGGCACGGCGAGCgccatgttttttttgaatgccAAAGATCCCGAGACCATCAACGCTACGCGCAAGCTCATGGTGGGGGTAGGATACAAAGTGCAGCGCGCGGCGCACGATTTGCTGCGTGGGTTTGCCCGTAAGCAAAGTCGACGGCCCCCCGCCACGGTGGGTAAGCCGGTATTGCGCGCCCAAGTCGTGCATTTCGTCAACAAGAAGATGCCTGGCGGGCTGCCTAAGCAAACCGCACGCAAGTTGTTAAATCTTGAGGACGCCAACTACGTTCCTGTTATTCGCAATCCTACGGCGACGACGGCTGACACCGAGGCAGTGTTTTATTTTCCCGGCTGCGGTTCCGAACGCTTATTTTCGCAGGTCGGGTTGGCGACGCAGGCTATGCTGTGGCATGTGGGTGTGCAAACCGTATTGCCGCCGGGCTACCTATGCTGCGGCTACCCACAGCGCGGCAATGGTATGTCGGACAAGGCGGAGCAAATTATCACTGACAACCGCGTATTGTTCCATCGCGTTGCCAACACGCTTAATTATCTTGACATTAAGACCGTAGTAGTAAGTTGCGGCACTTGTTATGACCAACTGGCCGATTACCAATTCGATAAAATCTTTCCTGGCTGTAGGCTCATTGACATTCATGAGTACTTGCTTGAGAAAGGCCTTAAGCTCGAGGGCGTGCAGGGCACTCGCTATATTTACCACGACCCTTGCCACACGCCCATGAAACTGCAGGAACCTATGAAAACCGTGCGTGCGTTGGTGGGCGATGCGGTCAACAAAAGCGATCGCTGTTGCGGCGAGGCCGGCACGCTTGCAGTGAGTCGGCCAGACGTTGCGACGCAAATCCGCTTTCGCAAGCAAGAAGAGTTGCAAAAGAGTAGCGCCGCGCTGCGCGCCGATGGCTTTGAAGGCGTTACGAAAGTGCTCACTTCCTGTCCTTCGTGTCTGCAAGGCTTGGCGCGTTACGAAAGCGATACCGGCATGGAGGCTGATTACATCGTGGTCGAAATGGCGCGGCACATCTTAGGCCAAAGCTGGATGGAAGACTACGTGCGCCGTGCCAATGCCGGCGGCATTGAGCGGGTGTTAGTTTAG

Transcript

BRAKERKRET00000023019

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P0DV35	D-2-hydroxyglutarate dehydrogenase OS=Xanthomonas citri pv. viticola (strain LMG 965 / NCPPB 2475 / ICMP 3867 / CFBP 7660) OX=1232713 GN=XVT_549 PE=1 SV=1
O29853	D-lactate dehydrogenase OS=Archaeoglobus fulgidus (strain ATCC 49558 / DSM 4304 / JCM 9628 / NBRC 100126 / VC-16) OX=224325 GN=dld PE=1 SV=1
D4MUV9	D-lactate dehydrogenase OS=Anaerostipes hadrus OX=649756 GN=CL2_23160 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0029828 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01565 all species →	FAD_binding_4	FAD binding domain	Domain	Interproscan
PF02913 all species →	FAD-oxidase_C	FAD linked oxidases, C-terminal domain	Domain	Interproscan
PF13183 all species →	Fer4_8	4Fe-4S dicluster domain	Domain	Interproscan
PF11880 all species →	DUF3400	Domain of unknown function (DUF3400)	Family	Interproscan
PF12447 all species →	DUF3683	Protein of unknown function (DUF3683)	Family	Interproscan
PF02754 all species →	CCG	Cysteine-rich domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006094 all species →	Domain	FAD linked oxidase, N-terminal	Interproscan
IPR009051 all species →	Homologous_superfamily	Alpha-helical ferredoxin	Interproscan
IPR004113 all species →	Domain	FAD-binding oxidoreductase/transferase, type 4, C-terminal	Interproscan
IPR017896 all species →	Domain	4Fe-4S ferredoxin-type, iron-sulphur binding domain	Interproscan
IPR017900 all species →	Conserved_site	4Fe-4S ferredoxin, iron-sulphur binding, conserved site	Interproscan
IPR036318 all species →	Homologous_superfamily	FAD-binding, type PCMH-like superfamily	Interproscan
IPR021817 all species →	Family	Protein of unknown function DUF3400	Interproscan
IPR016164 all species →	Homologous_superfamily	FAD-linked oxidase-like, C-terminal	Interproscan
IPR022153 all species →	Family	Protein of unknown function DUF3683	Interproscan
IPR016166 all species →	Domain	FAD-binding domain, PCMH-type	Interproscan
IPR051914 all species →	Family	FAD-linked Oxidoreductase/Transferase Type 4	Interproscan
IPR004017 all species →	Domain	Cysteine-rich domain	Interproscan
IPR016169 all species →	Homologous_superfamily	FAD-binding, type PCMH, subdomain 2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR42934 all species →	GLYCOLATE OXIDASE SUBUNIT GLCD	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0050660 all species →	Molecular Function	flavin adenine dinucleotide binding	Interproscan
GO:0051536 all species →	Molecular Function	iron-sulfur cluster binding	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0071949 all species →	Molecular Function	FAD 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 BRAKERKREP00000023019.1.

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000023019.1 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

6TPM > 0

7Conditions

0.3Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	1	0.01	0.20
Whole	6	4	0.11	0.35
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	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
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	0.20
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
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
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	0.35
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	0.22
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	0.05
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	0.03
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	0.00
SRR10058804	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.