Wdr41 (WD repeat domain 41) - Rat Genome Database

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Gene: Wdr41 (WD repeat domain 41) Rattus norvegicus
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Symbol: Wdr41
Name: WD repeat domain 41
RGD ID: 1306363
Description: Predicted to contribute to guanyl-nucleotide exchange factor activity. Predicted to be involved in positive regulation of GTPase activity and regulation of autophagy. Predicted to be located in cytoplasm. Predicted to be part of guanyl-nucleotide exchange factor complex. Orthologous to human WDR41 (WD repeat domain 41); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; furan.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC361879; WD repeat-containing protein 41
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2226,222,797 - 26,273,840 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl226,224,495 - 26,273,836 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx233,260,068 - 33,309,248 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0231,360,307 - 31,409,491 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0226,178,985 - 26,227,815 (+)NCBIRnor_WKY
Rnor_6.0224,668,108 - 24,717,280 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl224,668,116 - 24,717,267 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0243,827,385 - 43,876,540 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4225,299,797 - 25,349,926 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1225,264,929 - 25,270,296 (+)NCBI
Celera222,294,024 - 22,343,220 (+)NCBICelera
Cytogenetic Map2q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:17897319   PMID:27103069   PMID:27193190   PMID:27617292  


Genomics

Comparative Map Data
Wdr41
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2226,222,797 - 26,273,840 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl226,224,495 - 26,273,836 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx233,260,068 - 33,309,248 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0231,360,307 - 31,409,491 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0226,178,985 - 26,227,815 (+)NCBIRnor_WKY
Rnor_6.0224,668,108 - 24,717,280 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl224,668,116 - 24,717,267 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0243,827,385 - 43,876,540 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4225,299,797 - 25,349,926 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1225,264,929 - 25,270,296 (+)NCBI
Celera222,294,024 - 22,343,220 (+)NCBICelera
Cytogenetic Map2q12NCBI
WDR41
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38577,430,933 - 77,620,577 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl577,425,970 - 77,620,611 (-)EnsemblGRCh38hg38GRCh38
GRCh37576,726,758 - 76,788,141 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36576,763,825 - 76,824,088 (-)NCBINCBI36Build 36hg18NCBI36
Build 34576,763,825 - 76,824,088NCBI
Celera572,622,605 - 72,682,854 (-)NCBICelera
Cytogenetic Map5q13.3-q14.1NCBI
HuRef571,934,855 - 71,995,126 (-)NCBIHuRef
CHM1_1576,161,811 - 76,222,105 (-)NCBICHM1_1
T2T-CHM13v2.0577,913,542 - 77,974,918 (-)NCBIT2T-CHM13v2.0
Wdr41
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391395,112,226 - 95,161,800 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1395,112,852 - 95,159,822 (+)EnsemblGRCm39 Ensembl
GRCm381394,976,329 - 95,023,316 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1394,976,344 - 95,023,314 (+)EnsemblGRCm38mm10GRCm38
MGSCv371395,746,303 - 95,793,269 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361396,077,043 - 96,115,230 (+)NCBIMGSCv36mm8
Celera1398,594,444 - 98,641,510 (+)NCBICelera
Cytogenetic Map13C3- D1NCBI
Wdr41
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542523,470,278 - 23,514,638 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542523,366,130 - 23,510,897 (+)NCBIChiLan1.0ChiLan1.0
WDR41
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1538,338,267 - 38,398,503 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl538,214,273 - 38,398,503 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0537,809,767 - 37,870,039 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
WDR41
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1329,082,481 - 29,286,632 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl329,073,073 - 29,286,681 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha330,322,335 - 30,526,500 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0329,003,543 - 29,208,015 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl328,994,217 - 29,208,226 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1328,940,203 - 29,142,315 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0328,918,819 - 29,123,031 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0329,249,596 - 29,454,033 (+)NCBIUU_Cfam_GSD_1.0
Wdr41
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213185,240,144 - 185,405,769 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365495,453,913 - 5,494,533 (-)EnsemblSpeTri2.0
SpeTri2.0NW_0049365495,453,824 - 5,494,809 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
WDR41
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl286,319,014 - 86,380,588 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1286,322,933 - 86,380,619 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2287,933,152 - 88,028,663 (-)NCBISscrofa10.2Sscrofa10.2susScr3
WDR41
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1471,672,474 - 71,719,507 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl471,673,369 - 71,719,491 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604920,510,784 - 20,557,831 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Wdr41
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248691,938,925 - 1,981,045 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248691,936,960 - 1,980,932 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Wdr41
294 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:688
Count of miRNA genes:285
Interacting mature miRNAs:369
Transcripts:ENSRNOT00000036748, ENSRNOT00000067022
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631682Bp115Blood pressure QTL 1154.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2137410502Rat
738010Lnnr3Liver neoplastic nodule remodeling QTL 32.94liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)2141244106Rat
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)25873687102844969Rat
1600379Mcs18Mammary carcinoma susceptibility QTL 182.6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)2788777242804738Rat
738012Anxrr3Anxiety related response QTL 33.8exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)2902351954023519Rat
10755430Coatc6Coat color QTL 60.02576coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)21159110056591100Rat
1578664Bmd9Bone mineral QTL density 95femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)21185206249003364Rat
731184Mamtr4Mammary tumor resistance QTL 40.0003mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)21649174061491740Rat
1357990Ael1Aortic elastin QTL 13.10.00091aorta elastin amount (VT:0003905)aortic elastin21907682564076825Rat
731167Glom4Glomerulus QTL 42.40.0082kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)22030467265304672Rat
2300168Bmd47Bone mineral density QTL 476.60.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)22066244865662448Rat
10402051Gdil2Gastrointestinal dilation QTL 2enteric ganglion morphology trait (VT:0001045)length of intestine affected by colonic aganglionosis to total length of colon ratio (CMO:0001836)22490385374786777Rat
1302794Stl27Serum triglyceride level QTL 274.40.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)225413423143657569Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat

Markers in Region
AI599206  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2226,254,241 - 26,254,391 (+)MAPPERmRatBN7.2
Rnor_6.0224,697,861 - 24,698,010NCBIRnor6.0
Rnor_5.0243,857,130 - 43,857,279UniSTSRnor5.0
RGSC_v3.4225,329,542 - 25,329,691UniSTSRGSC3.4
Celera222,323,762 - 22,323,911UniSTS
RH 3.4 Map213.3UniSTS
Cytogenetic Map2q12UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 8 17 4 18 4 1 2 74 20 41 11 1
Low 3 35 40 37 1 37 7 9 15 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000036748   ⟹   ENSRNOP00000031387
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl226,224,531 - 26,272,751 (+)Ensembl
Rnor_6.0 Ensembl224,668,205 - 24,716,014 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000067022   ⟹   ENSRNOP00000061347
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl226,224,495 - 26,273,836 (+)Ensembl
Rnor_6.0 Ensembl224,668,116 - 24,717,267 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000109022   ⟹   ENSRNOP00000084562
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl226,225,985 - 26,272,751 (+)Ensembl
RefSeq Acc Id: NM_001108541   ⟹   NP_001102011
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2226,224,495 - 26,273,836 (+)NCBI
Rnor_6.0224,668,116 - 24,717,267 (+)NCBI
Rnor_5.0243,827,385 - 43,876,540 (+)NCBI
RGSC_v3.4225,299,797 - 25,349,926 (+)RGD
Celera222,294,024 - 22,343,220 (+)RGD
Sequence:
RefSeq Acc Id: XM_039102529   ⟹   XP_038958457
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2226,224,499 - 26,273,840 (+)NCBI
RefSeq Acc Id: XM_039102530   ⟹   XP_038958458
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2226,222,797 - 26,273,840 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001102011   ⟸   NM_001108541
- Sequence:
RefSeq Acc Id: ENSRNOP00000061347   ⟸   ENSRNOT00000067022
RefSeq Acc Id: ENSRNOP00000031387   ⟸   ENSRNOT00000036748
RefSeq Acc Id: XP_038958458   ⟸   XM_039102530
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038958457   ⟸   XM_039102529
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000084562   ⟸   ENSRNOT00000109022

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13691074
Promoter ID:EPDNEW_R1599
Type:multiple initiation site
Name:Wdr41_1
Description:WD repeat domain 41
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0224,668,156 - 24,668,216EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306363 AgrOrtholog
BioCyc Gene G2FUF-54823 BioCyc
Ensembl Genes ENSRNOG00000025462 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000031387 ENTREZGENE
  ENSRNOP00000031387.6 UniProtKB/TrEMBL
  ENSRNOP00000061347.2 UniProtKB/TrEMBL
  ENSRNOP00000084562 ENTREZGENE
  ENSRNOP00000084562.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000036748 ENTREZGENE
  ENSRNOT00000036748.6 UniProtKB/TrEMBL
  ENSRNOT00000067022.5 UniProtKB/TrEMBL
  ENSRNOT00000109022 ENTREZGENE
  ENSRNOT00000109022.1 UniProtKB/TrEMBL
Gene3D-CATH 2.130.10.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7937195 IMAGE-MGC_LOAD
InterPro G-protein_beta_WD-40_rep UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom UniProtKB/TrEMBL
  WD40_repeat UniProtKB/TrEMBL
  WD40_repeat_CS UniProtKB/TrEMBL
  WD40_repeat_dom_sf UniProtKB/TrEMBL
  WDR41 UniProtKB/TrEMBL
KEGG Report rno:361879 UniProtKB/TrEMBL
MGC_CLONE MGC:188582 IMAGE-MGC_LOAD
NCBI Gene 361879 ENTREZGENE
PANTHER PTHR22805 UniProtKB/TrEMBL
Pfam WD40 UniProtKB/TrEMBL
PhenoGen Wdr41 PhenoGen
PRINTS GPROTEINBRPT UniProtKB/TrEMBL
PROSITE WD_REPEATS_1 UniProtKB/TrEMBL
  WD_REPEATS_2 UniProtKB/TrEMBL
SMART WD40 UniProtKB/TrEMBL
Superfamily-SCOP WD40_like UniProtKB/TrEMBL
UniProt A0A8I5ZYE1_RAT UniProtKB/TrEMBL
  B2RYI7 ENTREZGENE, UniProtKB/TrEMBL
  D4A0P5_RAT UniProtKB/TrEMBL
  F7ETI3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Wdr41  WD repeat domain 41   Wdr41_predicted  WD repeat domain 41 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Wdr41_predicted  WD repeat domain 41 (predicted)      Symbol and Name status set to approved 70820 APPROVED