Gene detail

Detailed information of BRAKERKREP00000019992.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_002156501.1, nucleoporin NUP35 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8R4R6	Nucleoporin NUP35 OS=Mus musculus OX=10090 GN=Nup35 PE=1 SV=2
Q68FY1	Nucleoporin NUP35 OS=Rattus norvegicus OX=10116 GN=Nup35 PE=1 SV=1
Q8NFH5	Nucleoporin NUP35 OS=Homo sapiens OX=9606 GN=NUP35 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002332 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05172 all species →	Nup35_RRM	Nup53/35/40-type RNA recognition motif	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007846 all species →	Domain	RNA-recognition motif (RRM) Nup35-type domain	Interproscan
IPR035979 all species →	Homologous_superfamily	RNA-binding domain superfamily	Interproscan
IPR012677 all species →	Homologous_superfamily	Nucleotide-binding alpha-beta plait domain superfamily	Interproscan
IPR017389 all species →	Family	Nucleoporin, NUP53	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21527 all species →	NUCLEOPORIN NUP35	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0005543 all species →	Molecular Function	phospholipid binding	Interproscan
GO:0006607 all species →	Biological Process	NLS-bearing protein import into nucleus	Interproscan
GO:0006913 all species →	Biological Process	nucleocytoplasmic transport	Interproscan
GO:0006999 all species →	Biological Process	nuclear pore organization	Interproscan
GO:0017056 all species →	Molecular Function	structural constituent of nuclear pore	Interproscan
GO:0031965 all species →	Cellular Component	nuclear membrane	Interproscan
GO:0044613 all species →	Cellular Component	nuclear pore central transport channel	Interproscan
GO:0044615 all species →	Cellular Component	nuclear pore nuclear basket	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
K14313	NUP35, NUP53; nuclear pore complex protein Nup53	-	Messenger RNA biogenesis	ko03019	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000019992.1 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

10TPM > 0

7Conditions

18.9Max TPM

4.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	1	1.05	18.94
Whole	6	5	8.72	10.98
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	14.54	14.54
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	18.04	18.04
symbioic hydra M9 strain · symbioic hydra rep1	1	1	14.02	14.02
symbioic hydra M9 strain · symbioic hydra rep2	1	1	8.06	8.06
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
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	18.94
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
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
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	10.98
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	10.89
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	10.51
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	10.22
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	9.69
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	14.54
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	18.04
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	14.02
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	8.06
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.