Gene detail

Detailed information of BRAKERKREP00000023634.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: WP_003808505.1, MULTISPECIES: 50S ribosomal protein L25/general stress protein Ctc [Bordetella]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q7WNY3	Large ribosomal subunit protein bL25 OS=Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50) OX=257310 GN=rplY PE=3 SV=1
Q7W180	Large ribosomal subunit protein bL25 OS=Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253) OX=257311 GN=rplY PE=3 SV=1
Q7VUH2	Large ribosomal subunit protein bL25 OS=Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251) OX=257313 GN=rplY PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0024283 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14693 all species →	Ribosomal_TL5_C	Ribosomal protein TL5, C-terminal domain	Domain	Interproscan
PF01386 all species →	Ribosomal_L25p	Ribosomal L25p family	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011035 all species →	Homologous_superfamily	Large ribosomal subunit protein bL25/Gln-tRNA synthetase, anti-codon-binding domain superfamily	Interproscan
IPR020057 all species →	Domain	Large ribosomal subunit protein bL25, beta domain	Interproscan
IPR001021 all species →	Family	Ribosomal protein bL25, long-form	Interproscan
IPR020055 all species →	Family	Ribosomal protein bL25, short-form	Interproscan
IPR050070 all species →	Family	Bacterial ribosomal protein bL25	Interproscan
IPR020056 all species →	Homologous_superfamily	Large ribosomal subunit protein bL25/Gln-tRNA synthetase, N-terminal	Interproscan
IPR029751 all species →	Domain	Large ribosomal subunit protein bL25, L25 domain	Interproscan
IPR037121 all species →	Homologous_superfamily	Large ribosomal subunit protein bL25, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR33284 all species →	RIBOSOMAL PROTEIN L25/GLN-TRNA SYNTHETASE, ANTI-CODON-BINDING DOMAIN-CONTAINING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006412 all species →	Biological Process	translation	Interproscan
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0005840 all species →	Cellular Component	ribosome	Interproscan
GO:0008097 all species →	Molecular Function	5S rRNA binding	Interproscan
GO:0022625 all species →	Cellular Component	cytosolic large ribosomal subunit	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
K02897	RP-L25, rplY; large subunit ribosomal protein L25	-	Ribosome	ko03011	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000023634.1 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

17TPM > 0

7Conditions

16.7Max TPM

3.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	9	4.73	16.70
Whole	6	5	2.92	6.19
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	4.05	4.05
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	4.72	4.72
symbioic hydra M9 strain · symbioic hydra rep1	1	1	2.89	2.89
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
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977	16.70
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977	15.23
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977	14.44
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	14.31
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977	11.88
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	10.00
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	1.27
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	1.17
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	0.15
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134053	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
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
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	6.19
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	4.94
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	4.82
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	0.92
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	0.62
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	4.05
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	4.72
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	2.89
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.