Gene detail

Detailed information of BRAKERKREP00000023593.1 in Hydra viridissima

Genomic Location: QPEY01000524.1:853383...853847
NR annotation: MBO9352992.1, RNA polymerase-binding protein DksA [Bordetella petrii]
Species Hydra viridissima · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P0CAU3	RNA polymerase-binding transcription factor DksA OS=Caulobacter vibrioides (strain ATCC 19089 / CIP 103742 / CB 15) OX=190650 GN=dksA PE=3 SV=1
B8H0C0	RNA polymerase-binding transcription factor DksA OS=Caulobacter vibrioides (strain NA1000 / CB15N) OX=565050 GN=dksA PE=3 SV=1
P43758	RNA polymerase-binding transcription factor DksA OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) OX=71421 GN=dksA PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0014655 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01258 all species →	zf-dskA_traR	Prokaryotic dksA/traR C4-type zinc finger	Family	Interproscan
PF21157 all species →	DksA_CC	DnaK suppressor protein DksA, coiled-coil domain	Coiled-coil	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000962 all species →	Domain	Zinc finger, DksA/TraR C4-type	Interproscan
IPR012784 all species →	Family	RNA polymerase-binding transcription factor DksA	Interproscan
IPR020458 all species →	Conserved_site	Zinc finger, DksA/TraR C4-type conserved site	Interproscan
IPR048489 all species →	Domain	DnaK suppressor protein DksA, N-terminal domain	Interproscan
IPR037187 all species →	Homologous_superfamily	DksA, N-terminal domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR33823 all species →	RNA POLYMERASE-BINDING TRANSCRIPTION FACTOR DKSA-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008270 all species →	Molecular Function	zinc ion 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K06204	dksA; RNA polymerase-binding transcription factor	-	Ribosome biogenesis	ko03009	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000023593.1 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

1TPM > 0

7Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Max TPM
whole body	18	0	0.00
Whole	6	1	0.02
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	0	0.00
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	0	0.00
symbioic hydra M9 strain · symbioic hydra rep1	1	0	0.00
symbioic hydra M9 strain · symbioic hydra rep2	1	0	0.00
unannotated	1	0	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
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	0.02
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	0.00
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	0.00
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	0.00
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	0.00
SRR10058807	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.