Gene detail

Detailed information of BRAKERKREP00000022653.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: WP_188589809.1, UvrD-helicase domain-containing protein [Achromobacter denitrificans]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000022653

ATGGTAGCGAACGAAGCCGCAGGACCCAGTCTGAATCTCCCACAAAGAGAGGCAGTACGTTACTTAGACGGCCCATGCCTGGTACTGGCTGGCGCAGGCAGCGGCAAGACACGCGTCATTACGCAGAAAATCGCTTATTTGCTCCGTGAGTGTGGCTATACGGGTCGTAACGTTGTGGCGCTGACCTTCACCAATAAAGCGGCGCGTGAAATGGCTGAACGGGTAAAAACGCAGGTGGATACTAGACTGGCCAAAGGTTTGACGGTCAGTACGTTCCATTCGTTGGGGGTGCGTATTTTGCGCGAAGAAGCTAGCCACGCTAGTCTGAAGCCGCAGTTCTCCATTCTTGATGCTGACGACGCCATGGGGATTATTCAGGACTTGCTGGCAACGACGGACCGTGGTCGCTTGAAGGCAGTCCAGGCCACCATCTCGTTATGGAAAAACGCTCAGCTGGATCCCGATGGTGCCGAGCGAAGCGCAATAACGCCGGGGGATGTGGAAGCCGCCCGTATATATCGTAGTTACAACGCGACGCTGGCAGCTTATCAAGCAGTCGATTTCGACGACCTGATTTATATCCCCGCACAATTACTCGAACACCATGCCGAGGTGCGTGAGCGTTGGCAAAATCGAGTGCGGTACTTATTGGTAGATGAATATCAAGATACGAATGTTTGCCAGTACCGATTGGTGCAGCTTTTGACGGGTGCCCGCGCGAGGTTTACCGCTGTAGGCGACGATGATCAGGCTATTTACACCTGGCGTGGCGCTACCATTGAAAATCTCGCTAAGCTGACCACCGATTATCCCGGCATCAAGCTGATTAAACTAGAACAAAACTATCGATCAGTGCAGCGTATTCTTGCCGCGGCGAATAAAGTTCTGGAGCAGAATCCGAAGTTTTTCGAAAAAACGCTATGGTCTGACTTGGGAACGGGCGAACCTATCGTCGTGTCGGCCATGGACAGCGAGGAACACGAGGCTGAATCAATCGCAATGAAGATCTCAGCAGCGCGGTTTGAACGTCAGGCTAAGTGGAAAGACTTTGCGATCCTGTACCGTAGCAATCACCAATCACGCCCGCTAGAGCAGGCGTTGCGCAATTTAAAGATTCCGTACACCCTTGCTGGAGGACCCAGCTTTTTTGACAAAGCGGAAGTACGCGACATTCTGTCTTACCTGCGTTTGATTGCCAACGATGACGACGACCCAGCTTTCATCCGCGCGGCTACCACGCCGAAGCGGGGAATAGGACAAGCCACTTTGCAAACGCTAGGCCAGTACGCTGCGGCGCGTGAACTTTCGCTCATGAGCGCCGCGACTGAATCAGGGTTGGAAAGTCTGTTGCAGCTGAGACAGCTAGAGCCACTGCGCACTTTTGCTGAATTCATACGCCGCCTTCAGTGGCGCGCCGGCCGAGGCGCTGCGCACGGCAACAACGTTACCTCGGCTGAACCAGCGGGCCCTCTGCTTGATGATCTTCTGCACGCCATTCAGTATGAACGTCACCTCTACGATACGCTGGACGAACGGGCTGCTCAGGGGCGTTGGGAAAATGTGTGCGAACTCATCGGTTGGCTTAAGCGCAAGGCCGAGGAAGATAGTATGACCCTGTACGATCTGGTGCAGCACGTGGCGCTCATTACCATGCTCGAACGCGACCAGGAGGGCGAGCCCGATGCGGTCAAGCTATCCACGCTCCATGCTTCTAAGGGGCTGGAATACCCGCACGTGTACCTGGCCGGCGTCGAAGAGGGTTTGCTACCTCATCTAGGCAAAGACGAGACCGACGGCGACCCCGCCCGTGCCGCGGAGAACCTTACGCTGCGCATTCAAGAAGAGAGGCGCCTCGTGTATGTAGGTATCACCCGCGCGCAGCGCAGCTTAAACCTAAGTTGGTGCAAAAAACGACGTAAAGCCCGCGAGGAAATGGTGCGGGAGCCTTCACGCTTTATCGATGAAATGGGTTTGGGGACTGCCCGCATTGCAGAAGACGAAGCAACGCAGGCGATGAGTCCAAAGCAACGGTTGAGTATGCTGAAAACGCTGCTGAAAAAAGCATAG

Transcript

BRAKERKRET00000022653

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P09980	ATP-dependent DNA helicase Rep OS=Escherichia coli (strain K12) OX=83333 GN=rep PE=1 SV=3
Q9L6S1	ATP-dependent DNA helicase Rep OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) OX=99287 GN=rep PE=3 SV=1
P44804	ATP-dependent DNA helicase Rep OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) OX=71421 GN=rep PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0011730 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00580 all species →	UvrD-helicase	UvrD/REP helicase N-terminal domain	Domain	Interproscan
PF13361 all species →	UvrD_C	UvrD-like helicase C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013986 all species →	Homologous_superfamily	DExx box DNA helicase domain superfamily	Interproscan
IPR005752 all species →	Family	ATP-dependent DNA helicase Rep	Interproscan
IPR014017 all species →	Domain	UvrD-like DNA helicase, C-terminal	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR014016 all species →	Domain	UvrD-like helicase, ATP-binding domain	Interproscan
IPR000212 all species →	Family	DNA helicase, UvrD/REP type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11070 all species →	UVRD / RECB / PCRA DNA HELICASE FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003678 all species →	Molecular Function	DNA helicase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006268 all species →	Biological Process	DNA unwinding involved in DNA replication	Interproscan
GO:0016787 all species →	Molecular Function	hydrolase activity	Interproscan
GO:0000725 all species →	Biological Process	recombinational repair	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0043138 all species →	Molecular Function	3'-5' DNA helicase 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
K03656	rep; ATP-dependent DNA helicase Rep	EC:5.6.2.4	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 BRAKERKREP00000022653.1 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.