Wdr54 (WD repeat domain 54) - Rat Genome Database
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Gene: Wdr54 (WD repeat domain 54) Mus musculus
Analyze
Symbol: Wdr54
Name: WD repeat domain 54
RGD ID: 1557556
MGI Page MGI
Description: Predicted to have protein homodimerization activity. Predicted to be involved in negative regulation of receptor internalization; regulation of MAPK cascade; and regulation of epidermal growth factor receptor signaling pathway. Predicted to localize to vesicle. Orthologous to human WDR54 (WD repeat domain 54); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 4-hydroxyphenyl retinamide; benzo[a]pyrene.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 1700030E05Rik; MGC102039; WD repeat-containing protein 54
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39683,129,691 - 83,133,383 (-)NCBIGRCm39mm39
GRCm38683,152,710 - 83,156,524 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl683,149,361 - 83,156,397 (-)EnsemblGRCm38mm10GRCm38
MGSCv37683,102,704 - 83,106,373 (-)NCBIGRCm37mm9NCBIm37
MGSCv36683,118,406 - 83,122,025 (-)NCBImm8
Celera685,135,616 - 85,139,287 (-)NCBICelera
Cytogenetic Map6C3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
vesicle  (ISO)

Molecular Function

References

Additional References at PubMed
PMID:8889548   PMID:9806835   PMID:10349636   PMID:11042159   PMID:11076861   PMID:12477932   PMID:15489334   PMID:15782199   PMID:16141072   PMID:16141073   PMID:16602821   PMID:18799693  
PMID:21267068   PMID:21677750   PMID:21873635  


Genomics

Comparative Map Data
Wdr54
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39683,129,691 - 83,133,383 (-)NCBIGRCm39mm39
GRCm38683,152,710 - 83,156,524 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl683,149,361 - 83,156,397 (-)EnsemblGRCm38mm10GRCm38
MGSCv37683,102,704 - 83,106,373 (-)NCBIGRCm37mm9NCBIm37
MGSCv36683,118,406 - 83,122,025 (-)NCBImm8
Celera685,135,616 - 85,139,287 (-)NCBICelera
Cytogenetic Map6C3NCBI
WDR54
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl274,421,678 - 74,425,755 (+)EnsemblGRCh38hg38GRCh38
GRCh38274,421,721 - 74,426,259 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37274,648,857 - 74,652,882 (+)NCBIGRCh37GRCh37hg19GRCh37
GRCh37274,648,863 - 74,652,882 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36274,502,393 - 74,506,390 (+)NCBINCBI36hg18NCBI36
Build 34274,560,539 - 74,564,536NCBI
Celera274,480,074 - 74,484,071 (+)NCBI
Cytogenetic Map2p13.1NCBI
HuRef274,385,197 - 74,389,194 (+)NCBIHuRef
CHM1_1274,578,268 - 74,582,300 (+)NCBICHM1_1
LOC103692166
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0 Ensembl4114,850,815 - 114,853,868 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl4113,981,653 - 113,988,246 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.04113,984,754 - 113,988,487 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Celera4104,652,211 - 104,673,378 (-)NCBICelera
Cytogenetic Map4q34NCBI
Wdr54
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542411,358,694 - 11,362,053 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542411,358,694 - 11,362,138 (-)NCBIChiLan1.0ChiLan1.0
WDR54
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12A75,994,378 - 75,998,385 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A75,994,394 - 75,998,385 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02A74,488,345 - 74,492,392 (+)NCBIMhudiblu_PPA_v0panPan3
WDR54
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1748,700,431 - 48,704,344 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11748,700,432 - 48,734,250 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Wdr54
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936556646,312 - 649,961 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
WDR54
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl368,614,019 - 68,622,598 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1368,614,019 - 68,618,433 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2371,804,660 - 71,809,072 (+)NCBISscrofa10.2Sscrofa10.2susScr3
WDR54
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11432,851,904 - 32,855,918 (-)NCBI
ChlSab1.1 Ensembl1432,851,959 - 32,855,912 (-)Ensembl
Wdr54
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474929,076,668 - 29,080,169 (-)NCBI

Position Markers
U54638  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38683,152,444 - 83,152,526UniSTSGRCm38
MGSCv37683,102,438 - 83,102,520UniSTSGRCm37
Celera685,135,350 - 85,135,432UniSTS
Cytogenetic Map6C3UniSTS
Cytogenetic Map6D1UniSTS
cM Map634.81UniSTS
Whitehead/MRC_RH6851.62UniSTS
Rtkn  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38683,152,382 - 83,152,555UniSTSGRCm38
MGSCv37683,102,376 - 83,102,549UniSTSGRCm37
Celera685,135,288 - 85,135,461UniSTS
Cytogenetic Map6C3UniSTS
Cytogenetic Map6D1UniSTS
cM Map634.81UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
25440480Moaq2_mmodifier of alien QTL 2 (mouse)61117500000Mouse
26884414Bzwq12_mbi-zygomatic width QTL 12, 16 week (mouse)63400000139100000Mouse
1300556Cia6_mcollagen induced arthritis QTL 6 (mouse)Not determined6446488487426034Mouse
4142126W3q3_mweight 3 weeks QTL 3 (mouse)Not determined450382396656149Mouse
4142361W10q11_mweight 10 weeks QTL 11 (mouse)Not determined450382396656149Mouse
4142271Egq8_mearly growth QTL 8 (mouse)Not determined450382396656149Mouse
4142232W6q4_mweight 6 weeks QTL 4 (mouse)Not determined450382396656149Mouse
1558984Cplaq9_mcircadian period of locomotor activity 9 (mouse)Not determined63866962592607450Mouse
1300618Pgia19_mproteoglycan induced arthritis 19 (mouse)Not determined64531405987426034Mouse
10412157Fl1n_mfatty liver 1 in NSY (mouse)Not determined645314059128835032Mouse
4142259Tabw2_mtally ho associated body weight 2 (mouse)Not determined46935985136423692Mouse
25314319Histh6_mhistamine hypersensitivity 6 (mouse)648720000125360000Mouse
25314320Histh5_mhistamine hypersensitivity 5 (mouse)648720000148450000Mouse
1301962Eila2_methanol induced locomotor activity 2 (mouse)Not determined648726556125356785Mouse
1301254Skts11_mskin tumor susceptibility 11 (mouse)Not determined65117915085179300Mouse
1357683Igf1sl1_mIGF-1 serum levels 1 (mouse)Not determined652161713116155267Mouse
4141028Mclr_mmethylcholanthrene lymphoma resistance (mouse)Not determined5437342788379171Mouse
15039373Adip28_madiposity 28 (mouse)65630821190308211Mouse
15039375Bw41_mbody weight QTL 41 (mouse)65630821190308211Mouse
1558977Skmw10_mskeletal muscle weight 10 (mouse)Not determined65844758392447710Mouse
10043972Obq28_mobesity QTL 28 (mouse)Not determined65854043392540433Mouse
1301740Bwq2_mbody weight QTL 2 (mouse)Not determined66005768094057799Mouse
1301369Im4_mimmunoregulatory 4 (mouse)Not determined66348473897484905Mouse
1300650Bw18_mbody weight QTL 18 (mouse)Not determined666713869100714031Mouse
1301876Bits2_mbitterness sensitivity 2 (mouse)Not determined670425898104426034Mouse
1301813Skl3_mskeletal size (tail length) 3 (mouse)Not determined670425898104426034Mouse
1301034Egrm2_mearly growth rate (mouse)Not determined670425898104426034Mouse
4141990Etax6_methanol induced ataxia 6 (mouse)Not determined7132262186275719Mouse
1302020Bbaa20_mB.burgdorferi-associated arthritis 20 (mouse)Not determined67132262193464093Mouse
1300869Stheal5_msoft tissue heal 5 (mouse)Not determined671575060105575178Mouse
1300954Fcsa1_mfemoral cross-sectional area 1 (mouse)Not determined671981024105981170Mouse
1301521Pas1c_mpulmonary adenoma susceptibility 1c (mouse)Not determined671981024105981170Mouse
13506930Recrq9_mrecombination rate in male meiosis QTL 9 (mouse)673500000134700000Mouse
1301320Ots1_movarian teratoma susceptibility 1 (mouse)Not determined675447583104503555Mouse
1301571Arrd1_mage-related retinal degeneration 1 (mouse)Not determined67554435692607450Mouse
1300674Nidd3n_mnon-insulin-dependent diabetes mellitus 3 in NSY (mouse)Not determined67554435694225955Mouse
10412195Efw_mepididymal fat weight (mouse)Not determined67554435694225955Mouse
10043901Pfat5_mpredicted fat percentage 5 (mouse)Not determined675607306109607450Mouse
10412208Cypr4_mcytokine production 4 (mouse)Not determined675716503109716697Mouse
1357875Pfat2_mpredicted fat percentage 2 (mouse)Not determined676463949110464093Mouse
14697704Stsl4_mSalmonella typhimurium susceptibility locus 4 (mouse)67710000090000000Mouse
13824985Alh1_mamplitude of lateral head displacement 1 (mouse)67800000097000000Mouse
4141376Dbm1_mdiabetes modifier 1 (mouse)Not determined678629504121115387Mouse
14696731Pairq1_mP. aeruginosa infection resistance QTL 1 (mouse)681500000102200000Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:3031
Count of miRNA genes:847
Interacting mature miRNAs:1140
Transcripts:ENSMUST00000032108, ENSMUST00000125894, ENSMUST00000144723, ENSMUST00000146969, ENSMUST00000153148, ENSMUST00000154625
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001362119 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001362120 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_023790 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030255653 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030255654 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030255655 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036152387 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC007306 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC104324 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC160400 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF053628 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK006536 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK154345 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK202399 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC083332 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BY232896 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BY540708 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466523 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000032108
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl683,153,286 - 83,156,265 (-)Ensembl
RefSeq Acc Id: ENSMUST00000125894   ⟹   ENSMUSP00000122873
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl683,154,527 - 83,156,397 (-)Ensembl
RefSeq Acc Id: ENSMUST00000144723
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl683,152,710 - 83,156,220 (-)Ensembl
RefSeq Acc Id: ENSMUST00000146969
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl683,155,185 - 83,156,379 (-)Ensembl
RefSeq Acc Id: ENSMUST00000153148   ⟹   ENSMUSP00000116608
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl683,149,361 - 83,156,397 (-)Ensembl
RefSeq Acc Id: ENSMUST00000154625
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl683,152,714 - 83,156,365 (-)Ensembl
RefSeq Acc Id: NM_001362119   ⟹   NP_001349048
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39683,129,691 - 83,133,361 (-)NCBI
GRCm38683,152,710 - 83,156,379 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001362120   ⟹   NP_001349049
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39683,129,691 - 83,133,361 (-)NCBI
GRCm38683,152,710 - 83,156,379 (-)NCBI
Sequence:
RefSeq Acc Id: NM_023790   ⟹   NP_076279
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39683,129,691 - 83,133,361 (-)NCBI
GRCm38683,152,710 - 83,156,379 (-)NCBI
MGSCv37683,102,704 - 83,106,373 (-)RGD
Celera685,135,616 - 85,139,287 (-)RGD
cM Map6 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_030255653   ⟹   XP_030111513
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39683,129,691 - 83,133,383 (-)NCBI
GRCm38683,152,710 - 83,156,524 (-)NCBI
Sequence:
RefSeq Acc Id: XM_030255654   ⟹   XP_030111514
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39683,129,691 - 83,133,381 (-)NCBI
GRCm38683,152,710 - 83,156,524 (-)NCBI
Sequence:
RefSeq Acc Id: XM_030255655   ⟹   XP_030111515
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39683,129,691 - 83,133,383 (-)NCBI
GRCm38683,152,710 - 83,156,308 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036152387   ⟹   XP_036008280
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39683,129,691 - 83,133,383 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_076279   ⟸   NM_023790
- Peptide Label: isoform a
- UniProtKB: Q9R0D8 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_030111514   ⟸   XM_030255654
- Peptide Label: isoform X1
RefSeq Acc Id: XP_030111513   ⟸   XM_030255653
- Peptide Label: isoform X1
RefSeq Acc Id: NP_001349048   ⟸   NM_001362119
- Peptide Label: isoform a
RefSeq Acc Id: NP_001349049   ⟸   NM_001362120
- Peptide Label: isoform b
RefSeq Acc Id: XP_030111515   ⟸   XM_030255655
- Peptide Label: isoform X3
RefSeq Acc Id: ENSMUSP00000122873   ⟸   ENSMUST00000125894
RefSeq Acc Id: ENSMUSP00000116608   ⟸   ENSMUST00000153148
RefSeq Acc Id: XP_036008280   ⟸   XM_036152387
- Peptide Label: isoform X2

Promoters
RGD ID:6840163
Promoter ID:MM_KWN:46584
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_4Hour,   Brain,   Kidney,   Lung,   MEF_B4
Transcripts:ENSMUST00000032106,   NM_027948,   OTTMUST00000066642,   OTTMUST00000066643,   OTTMUST00000066644,   OTTMUST00000066645,   OTTMUST00000066646,   OTTMUST00000066647,   UC009CMV.1,   UC009CMX.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36683,106,201 - 83,106,701 (-)MPROMDB
RGD ID:6890144
Promoter ID:EPDNEW_M8523
Type:multiple initiation site
Name:Wdr54_1
Description:Mus musculus WD repeat domain 54 , transcript variant 1, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38683,156,369 - 83,156,429EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1922909 AgrOrtholog
Ensembl Genes ENSMUSG00000030032 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000116608 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000122873 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000125894 UniProtKB/TrEMBL
  ENSMUST00000153148 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 2.130.10.10 UniProtKB/Swiss-Prot
InterPro WD40/YVTN_repeat-like_dom_sf UniProtKB/Swiss-Prot
  WD40_repeat UniProtKB/Swiss-Prot
  WD40_repeat_dom UniProtKB/Swiss-Prot
  WD40_repeat_dom_sf UniProtKB/Swiss-Prot
KEGG Report mmu:75659 UniProtKB/Swiss-Prot
MGD MGI:1922909 ENTREZGENE
NCBI Gene 75659 ENTREZGENE
PhenoGen Wdr54 PhenoGen
PROSITE WD_REPEATS_2 UniProtKB/Swiss-Prot
  WD_REPEATS_REGION UniProtKB/Swiss-Prot
SMART WD40 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF50978 UniProtKB/Swiss-Prot
UniProt D3Z394_MOUSE UniProtKB/TrEMBL
  Q9R0D8 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q3U4A4 UniProtKB/Swiss-Prot