Gene detail

Detailed information of BRAKERKREP00000010261.1 in Hydra viridissima

Genomic Location: QPEY01000046.1:733755...747271
NR annotation: XP_047144990.1, WD repeat-containing protein 35 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERKRET00000010261

ATGTTTGTTTATCTAAGCAAGAAGattgCCATTCCCAATAATATTAAACTTCGAAGCATTGGTTGGAATCGTGAGCATGGTTATATTGCATGTGGTGGTGATGATGGCTTACTTAAAGTTTTGTGTCTTGAATCTCAAGGcgATCAAAAAGTTAAAGGTGCTGCACCAAATAATCTGTCTATGAATCAAACTCTAGAAGGTCATTCAGgaacTGTCCAGATAACTACTTGGAATGAGCAGTTCCAAAAGCTAACGACTAGTGACCAAGCTGGACTCATCATTGTTTGGATACTCTATAAAGGAGCTTGGTACGAAGAGATGATTAACAATCGTAACAAAAGTGTCGTGTGTGACATGAAGTGGAATGCAGATGGTCAAAAAATATGCATCACTTATGAGGATGGTGCTGTTATAATGGGATCAGTTGATGGCAACAGAATTTGGggaaaagactttaaaaatatgaatctaAGCAAAGTagaaTGGTCGCCTGATGGTAAGGTCATTCTTTTTGGACTAACTAATGGTGAAGTTCATATCTATGATAATTTGGGAAATTCCATTagCACTGTGGAGTTATTTTGTCTTGATGGTGGTTCTTCCAATTTAGTTGGTATAGAATGGTATAATGGTAATGCTGGTTATTTAGAGGAAAACTGCCCTTGCCTAGCAATTTGTTATGAAAATGGAAAGTGTCAAATAATGAAGGATGAAGTTGATGAAACTCCTATATTAATTAACACCAACATGACAGTAGCGTCTTTTAAGTGGTGTCATAATGGATCAATGTTTGCTGTGGCTGGTTCTCAGAAAGTTGCCAATCAAGATAAAGACATCAATAGTGTTCAGTTTTATAGTCCATTTGGAGAGCATTTGCGTACATTAAAGGTCCCTGGAAAAGATCTGAAATCATTAGCATGGGAAGGAGGCAGTCTTAGAATTGCTTTAGCTGTagatacatttatttattttgcaaatatcAGACCTGATtacaagTGGGGTTACTTTGCTGACACATTAGTATATGCTTTCACTAGACCCAATCGACGAGAATGGTGTGTGGTCTTTTGGGATACCAAAGGAAGCGAGagatatgtaaaatatattcgCAGCTTGGTGAGTATTGCCACTGCTGCTGACCATTGTATATTGGTGACTAAAGCTGAAGAAACAAGTTATCAGtatattttggTGTTGTGTAATGCCATTGGAACACCACTTGATTCAAGGTACATTGATATAgagccTCTTTTTATATGTATCACCTTGGCACATGTTATAGTTGCATCCAGGGAAGCATTTTATACATGGAATTATAAGAcggttaaaaaatttaatactgaAGCAGTTCAAAATGTTCAACGGAAAAAAGATGGTACTGAAAAgatGTTTCACATTGATGATGTACCTTCCGGTGCAGGTGATGGAATCACggatttgaaaaagataaaagctATGACCTCAGATCCTATTTGCAGTGTTTGTGCATCTGATAAAATATTAGTCATAGGAAGAGTGTCTGGTACCATTCACAAGTACTCTCTTCCTAGAGTGAGTTTAGAAAATAAGCATATTCTCAATTGCAGACCCTTTCAAATgtcattaaattcaaattctatgAGATTGGCCATTATTGACATCTTAGGAGTTCTCTCATTTTTTGATCTTgAAACCAAACACACAGATTTAAATACAGGAAAAGATGAAGTTGgtgaacatttaaattttgaaagaaaggATGTTTGGGATATGAAATGGGCTGATGACAATCCAGAATTGTTTGCTATGTTGGAGAAAACTAGAATGTACATATTTAGAAACCTTGATCCTGAGGAACCTGTTACTTCTTCTGGTTATATTTGTAAGTTCAGCGATCTGCAAATTAAAGCTGTTTTGTTAGATGATATAATGAAGgACCCAGATAATCCATCTAAAGAGCATATTGTTGAAATGGAAACAAAGTCTCTTCGTGATAGTCGAGATTTACTAGAGAAAGTTGGAATAGATGATGCATATCAATTCATTGCAGACAATCCTCACCCAAGATTATGGAGACTTTTAGCTGAATCAGCACTAGAAAAACTGGACTTAGAAGTTGCTGAGAAAGCATTTGTTCGCTGTCAAGATTATCATGGTATCAAGTTTgtaaaacagcttttaaagCTAGATaatgaaaACATTAAGCTTGCAGAAGTTGCAGCTTACTTCCAACGATATGAAGAAGCAGAGAAAATGTATTTAGACATGGATCGTTGggATTTGGCTGTTGAGATGCGCACCAAACTTGGGGATTGGTTTAGAGTTGTTCAACTTGTTAAATGGGGAGGTGGAGGAGATGATGTTTTGCTGGAGAAAGCTTGGAACGCCATAGGAGATTACTACTGTGATAGACAAAAGTGGGCAAATGCCATCCAGTACTATACAGAAGGAAGAAATGATGACAGAATTGTTGAATGCTATTACATGTTAGAAGATTATAATGGCATGTCTAAATTTGCTGCTCAATTACCTGATAATCATAAGCTACTAAAGTCCATTGGTGATAAGTTTGCTGCTATTGGACTGTGTGACGAAGCTGTAATGGCTTACTCAAAATGTAACCAAATTAAACTGGCCATTGAAACATGTGTTGTCCTCAATCAATGGGATCTTGCAGTAAAACTGGCCAAAGAGCACAAACATAACGAAATCAGTAGTCTTCTTGCAAAGTATGCAGCTCACTTGcttgaaaaaaacagaatattAGATGCTATTGAGTTGTACAGGAAAGCAAATCATTTTGTAGATGCTGCTAAGCTtctttttaagCTTGCTGATGGTGTGGCTAAATCACGCACTCATCCTATGAGAGCCAAACAGTTGTATGTACTTGGGGGATTATTGaTCGAATGCTACCATGTTTTAATGAAGGAAAATGCAGCTAAAGGAGCCATAGAAAAAGGAAAATCATATTCAGCACTTGCTGGTCTCTTAGAAGAGGATTTTACATCAACAGGCGATGCTTTAGTTGTAGATAATGCTTGGAGGGGGGCTGAGGCCTTTCATTTCTACTTACTTGCACAGCGGCAACTTTATGAAGGACATCCAGCTAGTGCGCTTAAAACGGTGATGCATTTACGTGATTACGATGATATTATTGATCCTGTGGACGCCCATTCGTTGATAGCATTAATTGCTTGTGCTAACGAAGCTTTTGCTGTATGCTCCAAGtcATTTATCAAGCTTGAATTGCTTGAAAGCCTTACTGAAGAACAAAGAAAGCAATATGAAGAGCTtgctttaaagattttcacaAGACACAGCCCAAAAGACGGGCGCTCAAATCAAATTGAATGCACAAGTTGCAGTTCTCGAATACCGGATTGGTGTTCTACTTGTCCTGCTTGCGATGTTAAATTCAGCGTCTGCATTGCCAGTGGTCGTCCATTATTAGAGTATCAATTCTGGATGTGTAGAGTATGTAAGCACAGAGCCTTCGAGGGAGAGATCAGTAACATGGTGGCATGCCCTCTATGTCACTCAGCTTTATAA

Transcript

BRAKERKRET00000010261

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A6N6J5	WD repeat-containing protein 35 OS=Rattus norvegicus OX=10116 GN=Wdr35 PE=1 SV=1
Q8BND3	WD repeat-containing protein 35 OS=Mus musculus OX=10090 GN=Wdr35 PE=1 SV=3
Q9P2L0	WD repeat-containing protein 35 OS=Homo sapiens OX=9606 GN=WDR35 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002208 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12894 all species →	ANAPC4_WD40	Anaphase-promoting complex subunit 4 WD40 domain	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR024977 all species →	Domain	Anaphase-promoting complex subunit 4-like, WD40 domain	Interproscan
IPR017233 all species →	Family	WD repeat protein 35	Interproscan
IPR039857 all species →	Family	Intraflagellar transport protein 122/121 homolog	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12764 all species →	WD REPEAT DOMAIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0030991 all species →	Cellular Component	intraciliary transport particle A	Interproscan
GO:0035721 all species →	Biological Process	intraciliary retrograde transport	Interproscan
GO:0060271 all species →	Biological Process	cilium assembly	Interproscan
GO:0061512 all species →	Biological Process	protein localization to cilium	Interproscan
GO:0097730 all species →	Cellular Component	non-motile cilium	Interproscan
GO:1905515 all species →	Biological Process	non-motile cilium assembly	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
K19674	WDR35, IFT121; WD repeat-containing protein 35	-	Cilium and associated proteins	ko03037	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000010261.1 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

7TPM > 0

7Conditions

0.4Max TPM

0.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	0	0.00	0.00
Whole	6	4	0.17	0.35
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	0.24	0.24
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	0.39	0.39
symbioic hydra M9 strain · symbioic hydra rep1	1	1	0.11	0.11
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
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
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
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	0.35
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	0.33
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	0.29
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	0.05
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	0.24
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	0.39
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	0.11
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.