Gene detail

Detailed information of BRAKERKREP00000023218.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: KAF1858374.1, hypothetical protein Lal_00014881 [Lupinus albus]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A9IHS0	Small ribosomal subunit protein uS13 OS=Bordetella petrii (strain ATCC BAA-461 / DSM 12804 / CCUG 43448) OX=340100 GN=rpsM PE=3 SV=1
Q2L248	Small ribosomal subunit protein uS13 OS=Bordetella avium (strain 197N) OX=360910 GN=rpsM PE=3 SV=1
Q7WRA0	Small ribosomal subunit protein uS13 OS=Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50) OX=257310 GN=rpsM PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005576 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00411 all species →	Ribosomal_S11	Ribosomal protein S11	Family	Interproscan
PF00416 all species →	Ribosomal_S13	Ribosomal protein S13/S18	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036967 all species →	Homologous_superfamily	Small ribosomal subunit protein uS11 superfamily	Interproscan
IPR018102 all species →	Conserved_site	Small ribosomal subunit protein uS11, conserved site	Interproscan
IPR001971 all species →	Family	Small ribosomal subunit protein uS11	Interproscan
IPR027437 all species →	Homologous_superfamily	Small ribosomal subunit protein uS13, C-terminal	Interproscan
IPR001892 all species →	Family	Small ribosomal subunit protein uS13	Interproscan
IPR010979 all species →	Homologous_superfamily	Small ribosomal subunit protein uS13-like, H2TH	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11759 all species →	40S RIBOSOMAL PROTEIN S14/30S RIBOSOMAL PROTEIN S11	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0005840 all species →	Cellular Component	ribosome	Interproscan
GO:0006412 all species →	Biological Process	translation	Interproscan
GO:0005763 all species →	Cellular Component	mitochondrial small ribosomal subunit	Interproscan
GO:0032543 all species →	Biological Process	mitochondrial translation	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid 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

No KEGG orthology assignment for BRAKERKREP00000023218.1.

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000023218.1 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

40.8Max TPM

13.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	3	5.98	40.80
Whole	6	5	29.98	38.38
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	36.79	36.79
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	36.70	36.70
symbioic hydra M9 strain · symbioic hydra rep1	1	1	25.93	25.93
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
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	40.80
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	37.64
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	29.18
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
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
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
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	38.38
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	37.19
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	36.72
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	36.66
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	30.95
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	36.79
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	36.70
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	25.93
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.