Gene detail

Detailed information of BRAKERKREP00000026533.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_047144391.1, thioredoxin domain-containing protein 11 isoform X1 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000026533

ATGCGTGAAAATGAGAACAAGTCTCTAGTTTATGAAGATGTAGAAAGGAgcaAATTTGTCTGTTTTGAAACATGGGCGAACCATATCATGACAGCTAGATATCATAGAGTGCCTAATTTTACAAGAATTTTGCATACTACAAAAGTTATTGTCATGGTGTTGTCAGGCATCGTATGTTTGGTCAGTCTTAGTTGGTGGTTATGGTTATACTGGGGGTTTGTTCTCTCTTATCAGCAAGAAGTTCATGGattatttcctttaaattCATCTGTAATAGACATAAAAGATGGCTCTATGCGTGAACTGCTCAATATAGTGCGCAATAAACCTATAAACATGGTAATATTTTATGCTCCATGGTCAGGAGATAGTATTGCATCAGTAAAGGAATTAAGTGCTGCTAGCCAGTTTCTAACAAGTCCAACTgttgCATTTATTTCAATCAACTGTTGGGAGGGATCTTGCAAAAATGTCTTTACAACATATTACTTTCCTAGAATCTTCTTATACCATACATCAAACACACCAATCGAATATCTCTTTGATATCGATTTCTACAATATTATAAGTTTTATCCAATCTGCTGTTAGACCTTGGATATACATAGGAAATAAACAACAGTTAACAAACTTCTTGAATACTGATAATTATGTAATAAGCTATATGGATAAgaagtttattcaaaatggtAATCGTTATCAGACTTTTCTCAGTGCTTCTGTACGCCTAATAAATAGAGCTAACAAGCCAAAAATAGGTCTTATTATTGATAGTGAATTAGCAGTCTATGCCAAACTTACTGCTCATGGGCAAATATGTTCTAGTGGCTTTTTACGAAAAATGAAGattGTTTCAGAGTTGACTCCAAATGCAACTGATGCAAGCTATTATCTTAATTCACTAAAGAAAACACCAGTTGCTCTCTTGGCATATTCCAATAACACTTTACACCATCAGTTTCAACATGCTGCATTAACATATTACAACTGCACCTGCCCTATAATTGAGAACaatattcataaacaaaaatgtttgttcTCTCGCAAGCAAGATAGATGCATTACATCATGGAATCTAGGAATTGTCTGTACACATTGTCAGTTTTGTTATGGAGTCTGTGAATGCAGCTCATTTATGTCTAAGTCCCACATTCCACTATTGCAAAGTTCTGGAAATTGTTTATCGAGTCGTATTTCCACGTATTACTTTCAAGACTCCTATTCTGTatgctgttttaaaatatctagtAAAGGTACATTGAAAAAATGGATTCCTTCTGGACACTTTATtgacaaagtaaaaaacttgaatttgaAGCAGACATggtttaaaatacatttaaaaacttttttttttaataaaaaacaagctgTCCCTAAAAGCTCTAACAAACTTCAAAGATGTGGTTTATCTGCGGCTTGTTGTAATACTAAAGATGGTCAACTTCCACACAAGTCTTTTGAAGGACTTGCATGTAAGACTAATCGAACTCTAAGTTTTTATACAATGaactataataaatataaatttattctaaatagTGTTGGTGTAGCAGATGCACCCAGTTTGCTGATATTTGATGTTTTGTCAGAAGAAAGCTTTGTGTCCAGAAACCTCACATACAAAGTTATAGttgactCAATCATGAATTTTACAAATGGCTACCTCCAACAACACTTTGAATCATTAAATACAGAGAAGGAAAAAGATGATCAGTCAGGAAAAGTAACAGAGTTAACTTCTAGCTCatttgaagattttattttgaaaactactAAGTGGCCATTCTGCAAGCAGTTGTGTCCATATTGcgattttaacaaatatattagGGATGATGTTGATAATGAACTTATGATCCATTGCTTACATAAGGAGTTTCAAACCATGTGTACTATGTATgatgttaagaaaataaagtcTGTTTATTTTGGAGGAgGAACACCAAGTTTGGCTCCTCCAAagttgataaataatttattagataaaatttgCAAGGATTTTGAGGTTGGCTGTGAAATATCAATAGAAGTGAATCCTACAACTActgagaaaaataaattaagCCAATTTAAATCTGCTGGTATCAATCGTGTGTCTATTGGAGTGCAGGCTCTAATTGACAATGATCTGAGGATTTTGGGTAGAGAGCATAATGTGAATCAAGCCTTAAATTGTTTTGAACATGCATATGATATTTTCAATACCAATGTTTCAATCGACATAATGTTTGGGAGACCAAATCAGACCCTTGATGGTTGGATATCTGAGTTGGAACAGATAATAGCTTTAAGGAGTAAACATTTGTCACTTTATCAATTGACGATGAAGAAAGGTACTCCAATGCagaaacaatacaaaaaagggcaattgCAACTACCATCAAATGATGCTTTAGCTGATATGTATGACACAACTGTTAagATGCTAGAGggtacaaaaataaaaagatatgaaGTTTCTAACTTTGCTGAGaaaggTTTTGAATGCAATCATAATCTATCTTATTGGCGAGGAGAAGATTACATAGGGATTGGACCTGgtGCTCATGGAAGACTTATCACACCTGATGGTTTATCAAGACATGCCTTAGTTCAAATTGCTGTGCCAGAGCATTGGATGAAACAGAAAGAATCAGACATCTTAgaagaatttatttcaaaacttgcTGCTAAAGATGGAATGTCTATTCATTCAGTGTGcaactATGACTTGATTTGGGaagaaattaaacataaaattgaagaaagaaagcaaaaaagtgAACGTTTCAGTATATCACTGGATGAGTTTACTTCTTCAAGGAATCGACGATACACGAACGTTAATGTTCATGAGCAAAACTGTCACTACAATCTTGGTACGATTAGGAGGTCAGCTGTATTTCCTGCTGAAAATTGTCTtgatattcttaaaaataatttgcctGAGTTTTGTCTGgatgtttaa

Transcript

BRAKERKRET00000026533

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A4IGH2	Radical S-adenosyl methionine domain-containing protein 1, mitochondrial OS=Danio rerio OX=7955 GN=rsad1 PE=2 SV=1
Q5SUV1	Radical S-adenosyl methionine domain-containing protein 1, mitochondrial OS=Mus musculus OX=10090 GN=Rsad1 PE=2 SV=1
A5D7B1	Radical S-adenosyl methionine domain-containing protein 1, mitochondrial OS=Bos taurus OX=9913 GN=RSAD1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004534 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04055 all species →	Radical_SAM	Radical SAM superfamily	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007197 all species →	Domain	Radical SAM	Interproscan
IPR034505 all species →	Family	Anaerobic coproporphyrinogen-III oxidase	Interproscan
IPR004559 all species →	Family	Heme chaperone HemW-like	Interproscan
IPR036249 all species →	Homologous_superfamily	Thioredoxin-like superfamily	Interproscan
IPR013785 all species →	Homologous_superfamily	Aldolase-type TIM barrel	Interproscan
IPR006638 all species →	Domain	Elp3/MiaA/NifB-like, radical SAM core domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13932 all species →	COPROPORPHYRINIGEN III OXIDASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0051536 all species →	Molecular Function	iron-sulfur cluster binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006779 all species →	Biological Process	porphyrin-containing compound biosynthetic process	Interproscan
GO:0051539 all species →	Molecular Function	4 iron, 4 sulfur cluster binding	Interproscan
GO:0004109 all species →	Molecular Function	coproporphyrinogen oxidase activity	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
K06871	K06871; uncharacterized protein	-	Function unknown	-	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000026533.1 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

9TPM > 0

7Conditions

4.3Max TPM

0.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	2	0.21	3.29
Whole	6	4	1.38	3.14
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	2.63	2.63
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	4.34	4.34
symbioic hydra M9 strain · symbioic hydra rep1	1	1	2.16	2.16
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	3.29
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977	0.53
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
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
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	3.14
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	2.63
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	1.38
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	1.16
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	2.63
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	4.34
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	2.16
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.