Gene detail

Detailed information of BRAKERKREP00000022845.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: WP_276262667.1, single-stranded-DNA-specific exonuclease RecJ, partial [Achromobacter denitrificans]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P39693	Single-stranded-DNA-specific exonuclease RecJ OS=Dickeya dadantii (strain 3937) OX=198628 GN=recJ PE=3 SV=3
P28355	Single-stranded-DNA-specific exonuclease RecJ OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) OX=99287 GN=recJ PE=3 SV=2
P21893	Single-stranded-DNA-specific exonuclease RecJ OS=Escherichia coli (strain K12) OX=83333 GN=recJ PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0024528 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02272 all species →	DHHA1	DHHA1 domain	Family	Interproscan
PF17768 all species →	RecJ_OB	RecJ OB domain	Domain	Interproscan
PF01368 all species →	DHH	DHH family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003156 all species →	Domain	DHHA1 domain	Interproscan
IPR038763 all species →	Homologous_superfamily	DHH phosphoesterase superfamily	Interproscan
IPR041122 all species →	Domain	RecJ, OB domain	Interproscan
IPR004610 all species →	Family	Bacterial RecJ exonuclease	Interproscan
IPR051673 all species →	Family	Single-stranded-DNA-specific exonuclease RecJ	Interproscan
IPR001667 all species →	Domain	DDH domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR30255 all species →	SINGLE-STRANDED-DNA-SPECIFIC EXONUCLEASE RECJ	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0006281 all species →	Biological Process	DNA repair	Interproscan
GO:0006310 all species →	Biological Process	DNA recombination	Interproscan
GO:0008409 all species →	Molecular Function	5'-3' exonuclease 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
K07462	recJ; single-stranded-DNA-specific exonuclease	EC:3.1.-.-	DNA repair and recombination proteins	ko03400	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000022845.1 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

8TPM > 0

7Conditions

1.7Max TPM

0.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	0	0.00	0.00
Whole	6	5	0.98	1.70
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	0.93	0.93
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	0.88	0.88
symbioic hydra M9 strain · symbioic hydra rep1	1	1	0.83	0.83
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
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	1.70
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	1.21
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	1.21
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	0.89
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	0.85
SRR10058802	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	0.93
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	0.88
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	0.83
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.