Gene detail

Detailed information of BRAKERKREP00000013612.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_047127595.1, uncharacterized protein LOC124808503 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A0JN61	DNA-directed RNA polymerase III subunit RPC9 OS=Bos taurus OX=9913 GN=CRCP PE=2 SV=1
Q60482	DNA-directed RNA polymerase III subunit RPC9 OS=Cavia porcellus OX=10141 GN=CRCP PE=2 SV=1
O75575	DNA-directed RNA polymerase III subunit RPC9 OS=Homo sapiens OX=9606 GN=CRCP PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009054 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03874 all species →	RNA_pol_Rpb4	RNA polymerase Rpb4	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR038324 all species →	Homologous_superfamily	Rpb4/RPC9 superfamily	Interproscan
IPR038846 all species →	Family	DNA-directed RNA polymerase III subunit RPC9	Interproscan
IPR005574 all species →	Family	RNA polymerase subunit Rpb4/RPC9	Interproscan
IPR010997 all species →	Homologous_superfamily	HRDC-like superfamily	Interproscan
IPR006590 all species →	Domain	RNA polymerase Rpb4/RPC9, core	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15561 all species →	CALCITONIN GENE-RELATED PEPTIDE-RECEPTOR COMPONENT PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005666 all species →	Cellular Component	RNA polymerase III complex	Interproscan
GO:0006384 all species →	Biological Process	transcription initiation at RNA polymerase III promoter	Interproscan
GO:0006352 all species →	Biological Process	DNA-templated transcription initiation	Interproscan
GO:0030880 all species →	Cellular Component	RNA polymerase complex	Interproscan
GO:0000166 all species →	Molecular Function	nucleotide binding	Interproscan
GO:0044237 all species →	Biological Process	obsolete cellular metabolic process	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
K25304	RPC9, CRCP; DNA-directed RNA polymerase III subunit RPC9	-	Transcription machinery	ko03021	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000013612.1 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

20TPM > 0

7Conditions

2,665.5Max TPM

1,062.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	10	709.56	1,970.95
Whole	6	6	1,528.27	1,638.22
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	1,618.05	1,618.05
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	2,122.62	2,122.62
symbioic hydra M9 strain · symbioic hydra rep1	1	1	2,665.53	2,665.53
symbioic hydra M9 strain · symbioic hydra rep2	1	1	2,449.20	2,449.20
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
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977	1,970.95
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	1,827.19
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	1,820.71
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	1,734.56
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977	1,549.99
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	1,350.51
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	1,292.45
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977	1,069.00
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	127.00
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977	29.76
SRR21134055	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
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
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	1,638.22
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	1,612.38
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	1,562.79
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	1,562.51
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	1,433.36
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	1,360.36
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	1,618.05
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	2,122.62
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	2,665.53
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	2,449.20
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.