Gene detail

Detailed information of BRAKERKREP00000017034.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_047140011.1, 50S ribosomal protein L20-like [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5U4Z8	Large ribosomal subunit protein bL20m OS=Xenopus laevis OX=8355 GN=mrpl20 PE=2 SV=1
B6JCK6	Large ribosomal subunit protein bL20 OS=Afipia carboxidovorans (strain ATCC 49405 / DSM 1227 / KCTC 32145 / OM5) OX=504832 GN=rplT PE=3 SV=1
Q9CQL4	Large ribosomal subunit protein bL20m OS=Mus musculus OX=10090 GN=Mrpl20 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005439 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00453 all species →	Ribosomal_L20	Ribosomal protein L20	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005813 all species →	Family	Large ribosomal subunit protein bL20	Interproscan
IPR035566 all species →	Homologous_superfamily	Ribosomal protein bL20, C-terminal	Interproscan
IPR049946 all species →	Conserved_site	Large ribosomal subunit protein bL20, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10986 all species →	39S RIBOSOMAL PROTEIN L20	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000027 all species →	Biological Process	ribosomal large subunit assembly	Interproscan
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0005761 all species →	Cellular Component	mitochondrial ribosome	Interproscan
GO:0005840 all species →	Cellular Component	ribosome	Interproscan
GO:0006412 all species →	Biological Process	translation	Interproscan
GO:0019843 all species →	Molecular Function	rRNA 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
K02887	RP-L20, MRPL20, rplT; large subunit ribosomal protein L20	-	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 BRAKERKREP00000017034.1 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

11TPM > 0

7Conditions

0.7Max TPM

0.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	5	0.12	0.72
Whole	6	4	0.31	0.55
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	0.53	0.53
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	0	0.00	0.00
symbioic hydra M9 strain · symbioic hydra rep1	1	1	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	TPM
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977	0.72
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977	0.60
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	0.40
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	0.22
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977	0.20
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
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
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	0.55
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	0.45
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	0.42
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	0.42
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	0.00
SRR10058804	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	0.53
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.