Wdr59 WD repeat domain 59 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Wdr59provided by MGI
Official Full Name: WD repeat domain 59provided by MGI
Primary source: MGI:MGI:2442115
See related: Ensembl:ENSMUSG00000031959 AllianceGenome:MGI:2442115
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Cdw12; 5430401O09Rik
Summary: Predicted to be involved in cellular response to amino acid starvation and positive regulation of TOR signaling. Predicted to be located in lysosomal membrane. Predicted to be part of GATOR2 complex. Is expressed in metanephros and testis. Orthologous to human WDR59 (WD repeat domain 59). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in ovary adult (RPKM 7.6), CNS E18 (RPKM 5.7) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 8 E1; 8 57.98 cM

Exon count:: 28

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	8	NC_000074.7 (112175413..112248760, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	8	NC_000074.6 (111448781..111522128, complement)

Chromosome 8 - NC_000074.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (2)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D17Got37 (e-PCR)
- UniSTS:113948

UniSTS:495977 (e-PCR)
- UniSTS:495977

Avpr1b (e-PCR), detects polymorphism
- UniSTS:495977

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables molecular_function	ND No biological Data available more info
enables signaling adaptor activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in cellular response to amino acid starvation	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular response to amino acid starvation	ISO Inferred from Sequence Orthology more info
involved_in cellular response to nutrient levels	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of TOR signaling	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of TORC1 signaling	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of TORC1 signaling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of protein kinase activity	ISO Inferred from Sequence Orthology more info	PubMed
acts_upstream_of_or_within protein localization to plasma membrane	ISO Inferred from Sequence Orthology more info	PubMed

Component	Evidence Code	Pubs
part_of GATOR2 complex	ISO Inferred from Sequence Orthology more info
part_of Seh1-associated complex	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in lysosomal membrane	ISO Inferred from Sequence Orthology more info
located_in lysosome	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in vacuolar membrane	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: GATOR2 complex protein WDR59

Names: CUL4- and DDB1-associated WDR protein 12; GATOR complex protein WDR59; WD repeat-containing protein 59

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001170742.2 → NP_001164213.1 GATOR2 complex protein WDR59 isoform 3

See identical proteins and their annotated locations for NP_001164213.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) lacks an alternate in-frame exon in the central coding region, compared to variant 1. This variant encodes isoform 3, which is shorter than isoform 1.

Source sequence(s)

AC124985, AC127356

Consensus CDS

CCDS85613.1

UniProtKB/Swiss-Prot

Q3TC49, Q3UWJ3, Q69Z65, Q6NZK7, Q8BLZ2, Q8BWK9, Q8C0M0

Related

ENSMUSP00000043671.9, ENSMUST00000038193.15

Conserved Domains (5) summary

smart00591
Location:394 → 494

RWD; domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain

COG2319
Location:34 → 314

WD40; WD40 repeat [General function prediction only]

sd00039
Location:62 → 103

7WD40; WD40 repeat [structural motif]

cl02567
Location:100 → 343

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

cl24077
Location:924 → 972

Zn_ribbon_17; Zinc-ribbon, C4HC2 type
NM_001170743.2 → NP_001164214.1 GATOR2 complex protein WDR59 isoform 1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).

Source sequence(s)

AC124985, AC127356

Consensus CDS

CCDS52672.1

UniProtKB/Swiss-Prot

Q3TC49, Q3UWJ3, Q69Z65, Q6NZK7, Q8BLZ2, Q8BWK9, Q8C0M0

Related

ENSMUSP00000034437.8, ENSMUST00000034437.8

Conserved Domains (5) summary

smart00591
Location:394 → 494

RWD; domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain

COG2319
Location:34 → 314

WD40; WD40 repeat [General function prediction only]

sd00039
Location:62 → 103

7WD40; WD40 repeat [structural motif]

cl02567
Location:100 → 343

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

cl24077
Location:943 → 991

Zn_ribbon_17; Zinc-ribbon, C4HC2 type
NM_001402828.1 → NP_001389757.1 GATOR2 complex protein WDR59 isoform 4

Status: VALIDATED

Source sequence(s)

AC124985, AC127356
NM_001402829.1 → NP_001389758.1 GATOR2 complex protein WDR59 isoform 5

Status: VALIDATED

Source sequence(s)

AC124985, AC127356
NM_176923.5 → NP_795897.2 GATOR2 complex protein WDR59 isoform 2

See identical proteins and their annotated locations for NP_795897.2

Status: VALIDATED

Description

Transcript Variant: This variant (2) has multiple differences in the coding region but maintains the reading frame, compared to variant 1. This variant encodes isoform 2, which is shorter than isoform 1.

Source sequence(s)

AC124985, AC127356

Consensus CDS

CCDS22675.1

UniProtKB/Swiss-Prot

Q3TC49, Q3UWJ3, Q69Z65, Q6NZK7, Q8BLZ2, Q8BWK9, Q8C0M0

UniProtKB/TrEMBL

A0A1D5RLJ8

Related

ENSMUSP00000148397.2, ENSMUST00000211981.2

Conserved Domains (5) summary

smart00591
Location:394 → 494

RWD; domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain

COG2319
Location:34 → 314

WD40; WD40 repeat [General function prediction only]

sd00039
Location:62 → 103

7WD40; WD40 repeat [structural motif]

cl02567
Location:100 → 343

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

cl24077
Location:941 → 989

Zn_ribbon_17; Zinc-ribbon, C4HC2 type

RNA

NR_175299.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

AC124985, AC127356

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000074.7 Reference GRCm39 C57BL/6J

Range

112175413..112248760 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_011248402.2 → XP_011246704.1 GATOR2 complex protein WDR59 isoform X3

Conserved Domains (3) summary

smart00591
Location:394 → 494

RWD; domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain

sd00039
Location:62 → 103

7WD40; WD40 repeat [structural motif]

cl29593
Location:100 → 343

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...