Wdr5b (WD repeat domain 5B) - Rat Genome Database

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Gene: Wdr5b (WD repeat domain 5B) Rattus norvegicus
Analyze
Symbol: Wdr5b
Name: WD repeat domain 5B
RGD ID: 1308567
Description: Predicted to enable histone binding activity. Predicted to be part of Set1C/COMPASS complex. Orthologous to human WDR5B (WD repeat domain 5B); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC303907; WD repeat-containing protein 5B
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81178,216,266 - 78,218,125 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1178,190,355 - 78,218,501 (-)EnsemblGRCr8
mRatBN7.21164,710,945 - 64,712,804 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1164,710,355 - 64,712,807 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1173,536,288 - 73,538,147 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01166,198,550 - 66,200,409 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01165,229,798 - 65,231,657 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01167,645,959 - 67,647,818 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1167,645,965 - 67,647,818 (-)Ensemblrn6Rnor6.0
Rnor_5.01170,733,436 - 70,735,295 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41166,546,008 - 66,547,867 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1164,176,936 - 64,178,795 (-)NCBICelera
RGSC_v3.11166,603,598 - 66,605,456 (-)NCBI
Cytogenetic Map11q22NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleoplasm  (ISO)
nucleus  (IEA,ISO,ISS)
Set1C/COMPASS complex  (IBA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. PERIOD1-associated proteins modulate the negative limb of the mammalian circadian oscillator. Brown SA, etal., Science. 2005 Apr 29;308(5722):693-6.
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:15489334  


Genomics

Comparative Map Data
Wdr5b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81178,216,266 - 78,218,125 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1178,190,355 - 78,218,501 (-)EnsemblGRCr8
mRatBN7.21164,710,945 - 64,712,804 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1164,710,355 - 64,712,807 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1173,536,288 - 73,538,147 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01166,198,550 - 66,200,409 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01165,229,798 - 65,231,657 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01167,645,959 - 67,647,818 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1167,645,965 - 67,647,818 (-)Ensemblrn6Rnor6.0
Rnor_5.01170,733,436 - 70,735,295 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41166,546,008 - 66,547,867 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1164,176,936 - 64,178,795 (-)NCBICelera
RGSC_v3.11166,603,598 - 66,605,456 (-)NCBI
Cytogenetic Map11q22NCBI
WDR5B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383122,411,846 - 122,416,062 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3122,411,846 - 122,416,464 (-)Ensemblhg38GRCh38
GRCh373122,130,693 - 122,134,909 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363123,613,390 - 123,617,572 (-)NCBIBuild 36Build 36hg18NCBI36
Build 343123,613,389 - 123,617,572NCBI
Celera3120,540,328 - 120,544,510 (-)NCBICelera
Cytogenetic Map3q21.1NCBI
HuRef3119,504,011 - 119,508,193 (-)NCBIHuRef
CHM1_13122,094,185 - 122,098,367 (-)NCBICHM1_1
T2T-CHM13v2.03125,131,401 - 125,135,617 (-)NCBIT2T-CHM13v2.0
Wdr5b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391635,861,560 - 35,863,344 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1635,861,560 - 35,864,298 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381636,041,190 - 36,042,974 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1636,041,190 - 36,043,928 (+)Ensemblmm10GRCm38
MGSCv371636,041,276 - 36,043,060 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361635,960,937 - 35,962,721 (+)NCBIMGSCv36mm8
Celera1636,521,798 - 36,523,582 (+)NCBICelera
Cytogenetic Map16B3NCBI
cM Map1625.43NCBI
Wdr5b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542721,698,917 - 21,699,888 (-)Ensembl
ChiLan1.0NW_00495542721,698,766 - 21,700,390 (-)NCBIChiLan1.0ChiLan1.0
WDR5B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22120,357,926 - 120,361,745 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13120,360,418 - 120,366,525 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03119,503,001 - 119,506,814 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13126,408,696 - 126,412,482 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3126,410,902 - 126,411,894 (-)EnsemblpanPan2panpan1.1
WDR5B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13325,554,218 - 25,557,025 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3325,555,419 - 25,556,408 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha3325,578,548 - 25,581,379 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.03325,789,314 - 25,792,140 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3325,789,314 - 25,792,105 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13325,586,303 - 25,589,137 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03325,629,685 - 25,632,491 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03326,187,207 - 26,190,033 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Wdr5b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602128,787,032 - 128,794,125 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365368,728,735 - 8,730,367 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365368,727,881 - 8,731,067 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
WDR5B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13138,109,848 - 138,113,646 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.113138,109,758 - 138,113,638 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213147,720,711 - 147,723,427 (+)NCBISscrofa10.2Sscrofa10.2susScr3
WDR5B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12258,444,586 - 58,446,316 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2258,445,149 - 58,446,141 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666041107,895,882 - 107,899,147 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Wdr5b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624912764,076 - 766,647 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624912762,893 - 766,690 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Wdr5b
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1420,813,527 - 20,815,450 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Wdr5b
14 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:107
Count of miRNA genes:92
Interacting mature miRNAs:96
Transcripts:ENSRNOT00000003068
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)114644316891443168Rat
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)117330848796070872Rat
1598811Bp291Blood pressure QTL 2911.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)113330600878306008Rat
4889859Pur28Proteinuria QTL 2819.50.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)115892833699753367Rat
10755497Bp388Blood pressure QTL 3882.76arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)113294306789836615Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)113642841681428416Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)117385089499753367Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)113461876079618760Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)115893182292356038Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)115775483796071021Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112019354996351019Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)116796218499753367Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)117330831599753367Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)113674945981749459Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)115827236396350770Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)115107102196071021Rat
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)112252474682951192Rat
1598841Memor7Memory QTL 7exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)113330600878306008Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)115827236396350770Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)113674945981749459Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)115441539196071021Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)113674945981749459Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)113674945981749459Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)116859932196497754Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)116985594399753367Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 90 59 6 354 190 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000003068   ⟹   ENSRNOP00000003068
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1178,198,777 - 78,218,501 (-)Ensembl
mRatBN7.2 Ensembl1164,710,355 - 64,712,807 (-)Ensembl
Rnor_6.0 Ensembl1167,645,965 - 67,647,818 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000130872   ⟹   ENSRNOP00000110190
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1178,190,355 - 78,218,501 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000149377   ⟹   ENSRNOP00000111116
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1178,198,932 - 78,218,501 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000159366   ⟹   ENSRNOP00000099833
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1178,207,297 - 78,218,351 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000164501   ⟹   ENSRNOP00000111859
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1178,190,355 - 78,218,501 (-)Ensembl
RefSeq Acc Id: NM_001024766   ⟹   NP_001019937
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81178,216,266 - 78,218,125 (-)NCBI
mRatBN7.21164,710,945 - 64,712,804 (-)NCBI
Rnor_6.01167,645,959 - 67,647,818 (-)NCBI
Rnor_5.01170,733,436 - 70,735,295 (-)NCBI
RGSC_v3.41166,546,008 - 66,547,867 (-)RGD
Celera1164,176,936 - 64,178,795 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001019937 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH97449 (Get FASTA)   NCBI Sequence Viewer  
  EDM11297 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000003068
  ENSRNOP00000003068.2
GenBank Protein Q4V8C4 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001019937   ⟸   NM_001024766
- UniProtKB: Q4V8C4 (UniProtKB/Swiss-Prot),   A6IRE4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000003068   ⟸   ENSRNOT00000003068
Ensembl Acc Id: ENSRNOP00000110190   ⟸   ENSRNOT00000130872
Ensembl Acc Id: ENSRNOP00000099833   ⟸   ENSRNOT00000159366
Ensembl Acc Id: ENSRNOP00000111116   ⟸   ENSRNOT00000149377
Ensembl Acc Id: ENSRNOP00000111859   ⟸   ENSRNOT00000164501

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q4V8C4-F1-model_v2 AlphaFold Q4V8C4 1-328 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308567 AgrOrtholog
BioCyc Gene G2FUF-21210 BioCyc
Ensembl Genes ENSRNOG00000002253 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000003068 ENTREZGENE
  ENSRNOT00000003068.4 UniProtKB/Swiss-Prot
Gene3D-CATH 2.130.10.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7456711 IMAGE-MGC_LOAD
InterPro G-protein_beta_WD-40_rep UniProtKB/Swiss-Prot
  WD40/YVTN_repeat-like_dom_sf UniProtKB/Swiss-Prot
  WD40_repeat UniProtKB/Swiss-Prot
  WD40_repeat_CS UniProtKB/Swiss-Prot
  WD40_repeat_dom_sf UniProtKB/Swiss-Prot
KEGG Report rno:303907 UniProtKB/Swiss-Prot
MGC_CLONE MGC:114509 IMAGE-MGC_LOAD
NCBI Gene 303907 ENTREZGENE
PANTHER CANNONBALL-RELATED UniProtKB/Swiss-Prot
  TRANSCRIPTION INITIATION FACTOR TFIID UniProtKB/Swiss-Prot
Pfam Beta-prop_WDR5 UniProtKB/Swiss-Prot
PhenoGen Wdr5b PhenoGen
PIRSF GN-bd_beta UniProtKB/Swiss-Prot
PRINTS GPROTEINBRPT UniProtKB/Swiss-Prot
PROSITE WD_REPEATS_1 UniProtKB/Swiss-Prot
  WD_REPEATS_2 UniProtKB/Swiss-Prot
  WD_REPEATS_REGION UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000002253 RatGTEx
SMART WD40 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF50978 UniProtKB/Swiss-Prot
UniProt A6IRE4 ENTREZGENE, UniProtKB/TrEMBL
  Q4V8C4 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Wdr5b  WD repeat domain 5B  Wdr5b_predicted  WD repeat domain 5B (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Wdr5b_predicted  WD repeat domain 5B (predicted)      Symbol and Name status set to approved 70820 APPROVED