Wdr13 (WD repeat domain 13) - Rat Genome Database

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Gene: Wdr13 (WD repeat domain 13) Rattus norvegicus
Analyze
Symbol: Wdr13
Name: WD repeat domain 13
RGD ID: 1560982
Description: Predicted to enable promoter-specific chromatin binding activity. Predicted to act upstream of or within negative regulation of type B pancreatic cell proliferation. Orthologous to human WDR13 (WD repeat domain 13); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC317370; RGD1560982; similar to putative WD-repeat protein; WD repeat-containing protein 13
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Related Pseudogenes: Wdr13-ps1  
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X17,034,779 - 17,045,682 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX17,034,504 - 17,045,679 (+)EnsemblGRCr8
mRatBN7.2X14,362,484 - 14,373,727 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX14,362,860 - 14,373,727 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX19,176,180 - 19,187,046 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X20,896,034 - 20,906,900 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X17,161,225 - 17,172,091 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X15,112,663 - 15,123,825 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX15,113,878 - 15,122,146 (+)Ensemblrn6Rnor6.0
Rnor_5.0X15,895,830 - 15,906,986 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X26,394,400 - 26,402,277 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX14,448,830 - 14,456,706 (+)NCBICelera
Cytogenetic MapXq12NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleoplasm  (ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:14499481   PMID:22715406  


Genomics

Comparative Map Data
Wdr13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X17,034,779 - 17,045,682 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX17,034,504 - 17,045,679 (+)EnsemblGRCr8
mRatBN7.2X14,362,484 - 14,373,727 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX14,362,860 - 14,373,727 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX19,176,180 - 19,187,046 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X20,896,034 - 20,906,900 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X17,161,225 - 17,172,091 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X15,112,663 - 15,123,825 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX15,113,878 - 15,122,146 (+)Ensemblrn6Rnor6.0
Rnor_5.0X15,895,830 - 15,906,986 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X26,394,400 - 26,402,277 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX14,448,830 - 14,456,706 (+)NCBICelera
Cytogenetic MapXq12NCBI
WDR13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X48,597,492 - 48,608,869 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX48,589,838 - 48,608,869 (+)Ensemblhg38GRCh38
GRCh37X48,455,880 - 48,467,257 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X48,340,845 - 48,348,518 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34X48,212,154 - 48,219,828NCBI
CeleraX53,202,158 - 53,209,859 (-)NCBICelera
Cytogenetic MapXp11.23NCBI
HuRefX46,119,373 - 46,127,116 (+)NCBIHuRef
CHM1_1X48,487,115 - 48,494,815 (+)NCBICHM1_1
T2T-CHM13v2.0X48,006,491 - 48,017,871 (+)NCBIT2T-CHM13v2.0
Wdr13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X7,989,540 - 7,999,134 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX7,989,540 - 7,999,131 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38X8,123,301 - 8,132,858 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX8,123,301 - 8,132,892 (-)Ensemblmm10GRCm38
MGSCv37X7,700,427 - 7,709,984 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36X7,280,293 - 7,289,397 (-)NCBIMGSCv36mm8
CeleraX3,336,407 - 3,345,965 (+)NCBICelera
Cytogenetic MapXA1.1NCBI
cM MapX3.67NCBI
Wdr13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955543182,279 - 190,435 (+)Ensembl
ChiLan1.0NW_004955543182,279 - 190,435 (+)NCBIChiLan1.0ChiLan1.0
WDR13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X50,086,391 - 50,097,783 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X50,089,763 - 50,101,155 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X40,895,793 - 40,907,183 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X48,750,502 - 48,765,111 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX48,757,416 - 48,765,111 (+)EnsemblpanPan2panpan1.1
WDR13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X41,818,916 - 41,825,815 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX41,818,950 - 41,825,811 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_TashaX16,195,277 - 16,202,190 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0X50,252,408 - 50,259,324 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX50,252,412 - 50,259,276 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X41,941,934 - 41,948,847 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X41,930,304 - 41,937,200 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X42,024,053 - 42,030,968 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Wdr13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X34,326,121 - 34,353,854 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936721566,520 - 574,934 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936721566,529 - 594,203 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
WDR13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX42,722,730 - 42,730,199 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1X42,715,097 - 42,730,200 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X47,610,683 - 47,614,916 (+)NCBISscrofa10.2Sscrofa10.2susScr3
WDR13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X45,721,318 - 45,729,152 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX45,721,406 - 45,733,103 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366607611,198,138 - 11,205,800 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Wdr13
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624893422,872 - 431,515 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624893422,964 - 434,475 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Wdr13
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1X15,524,002 - 15,535,197 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Wdr13
11 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:118
Count of miRNA genes:96
Interacting mature miRNAs:105
Transcripts:ENSRNOT00000007464
Prediction methods:Microtar, Miranda, Pita, 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
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X400149344939387Rat
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X197044046970440Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X811148653111486Rat
634325Bw13Body weight QTL 130body mass (VT:0001259)body weight (CMO:0000012)X400149324470521Rat

Markers in Region
RH128606  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X14,373,431 - 14,373,627 (+)MAPPERmRatBN7.2
mRatBN7.2178,475,353 - 78,475,539 (+)MAPPERmRatBN7.2
Rnor_6.0179,734,168 - 79,734,353NCBIRnor6.0
Rnor_6.0X15,123,530 - 15,123,725NCBIRnor6.0
Rnor_5.0180,996,715 - 80,996,900UniSTSRnor5.0
Rnor_5.0X15,906,691 - 15,906,886UniSTSRnor5.0
RGSC_v3.4X26,404,057 - 26,404,252UniSTSRGSC3.4
RGSC_v3.4178,179,351 - 78,179,536UniSTSRGSC3.4
Celera172,942,467 - 72,942,652UniSTS
CeleraX14,458,486 - 14,458,681UniSTS
Cytogenetic MapXq13UniSTS
BE118323  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2178,475,064 - 78,475,255 (+)MAPPERmRatBN7.2
mRatBN7.2X14,373,142 - 14,373,333 (+)MAPPERmRatBN7.2
Rnor_6.0X15,123,241 - 15,123,431NCBIRnor6.0
Rnor_6.0179,733,879 - 79,734,069NCBIRnor6.0
Rnor_5.0180,996,426 - 80,996,616UniSTSRnor5.0
Rnor_5.0X15,906,402 - 15,906,592UniSTSRnor5.0
RGSC_v3.4X26,403,768 - 26,403,958UniSTSRGSC3.4
RGSC_v3.4178,179,062 - 78,179,252UniSTSRGSC3.4
Celera172,942,178 - 72,942,368UniSTS
CeleraX14,458,197 - 14,458,387UniSTS
Cytogenetic MapXq13UniSTS


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 67 164 91 90 59 92 59 6 356 192 11 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000007464   ⟹   ENSRNOP00000007464
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX17,035,190 - 17,045,679 (+)Ensembl
mRatBN7.2 EnsemblX14,362,860 - 14,373,727 (+)Ensembl
Rnor_6.0 EnsemblX15,113,878 - 15,121,748 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000078168   ⟹   ENSRNOP00000071449
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX15,114,892 - 15,122,146 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000143410   ⟹   ENSRNOP00000102717
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX17,034,504 - 17,045,679 (+)Ensembl
RefSeq Acc Id: NM_001108247   ⟹   NP_001101717
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X17,034,815 - 17,045,682 (+)NCBI
mRatBN7.2X14,362,860 - 14,373,727 (+)NCBI
Rnor_6.0X15,113,878 - 15,121,750 (+)NCBI
Rnor_5.0X15,895,830 - 15,906,986 (+)NCBI
RGSC_v3.4X26,394,400 - 26,402,277 (+)RGD
CeleraX14,448,830 - 14,456,706 (+)RGD
Sequence:
RefSeq Acc Id: NM_001398749   ⟹   NP_001385678
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X17,034,815 - 17,045,682 (+)NCBI
mRatBN7.2X14,362,860 - 14,373,727 (+)NCBI
RefSeq Acc Id: XM_039099769   ⟹   XP_038955697
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X17,035,064 - 17,045,682 (+)NCBI
mRatBN7.2X14,363,116 - 14,373,727 (+)NCBI
RefSeq Acc Id: XM_039099770   ⟹   XP_038955698
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X17,034,779 - 17,045,682 (+)NCBI
mRatBN7.2X14,362,484 - 14,373,727 (+)NCBI
RefSeq Acc Id: XM_063280050   ⟹   XP_063136120
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X17,035,938 - 17,045,682 (+)NCBI
RefSeq Acc Id: NP_001101717   ⟸   NM_001108247
- Peptide Label: isoform 1
- UniProtKB: B2RZ63 (UniProtKB/TrEMBL),   G3V6Q3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000007464   ⟸   ENSRNOT00000007464
Ensembl Acc Id: ENSRNOP00000071449   ⟸   ENSRNOT00000078168
RefSeq Acc Id: XP_038955698   ⟸   XM_039099770
- Peptide Label: isoform X2
- UniProtKB: B2RZ63 (UniProtKB/TrEMBL),   G3V6Q3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038955697   ⟸   XM_039099769
- Peptide Label: isoform X1
- UniProtKB: G3V6Q3 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001385678   ⟸   NM_001398749
- Peptide Label: isoform 2
- UniProtKB: A6KP51 (UniProtKB/TrEMBL),   G3V6Q3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063136120   ⟸   XM_063280050
- Peptide Label: isoform X3
Ensembl Acc Id: ENSRNOP00000102717   ⟸   ENSRNOT00000143410

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K0H6-F1-model_v2 AlphaFold A0A0G2K0H6 1-393 view protein structure

Transcriptome

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

Promoters
RGD ID:13701731
Promoter ID:EPDNEW_R12255
Type:single initiation site
Name:Wdr13_1
Description:WD repeat domain 13
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_6.0X15,113,789 - 15,113,849EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1560982 AgrOrtholog
BioCyc Gene G2FUF-2946 BioCyc
Ensembl Genes ENSRNOG00000039587 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000007464 ENTREZGENE
  ENSRNOT00000007464.9 UniProtKB/TrEMBL
  ENSRNOT00000143410 ENTREZGENE
  ENSRNOT00000143410.1 UniProtKB/TrEMBL
Gene3D-CATH 2.130.10.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7135266 IMAGE-MGC_LOAD
InterPro WD40/YVTN_repeat-like_dom UniProtKB/TrEMBL
  WD40_repeat UniProtKB/TrEMBL
  WD40_repeat_dom_sf UniProtKB/TrEMBL
  WD_repeat-ST_regulator UniProtKB/TrEMBL
KEGG Report rno:317370 UniProtKB/TrEMBL
MGC_CLONE MGC:189305 IMAGE-MGC_LOAD
NCBI Gene 317370 ENTREZGENE
PANTHER WD REPEAT PROTEIN 26-RELATED UniProtKB/TrEMBL
  WD REPEAT-CONTAINING PROTEIN 13 UniProtKB/TrEMBL
Pfam WD40 UniProtKB/TrEMBL
PhenoGen Wdr13 PhenoGen
PROSITE WD_REPEATS_2 UniProtKB/TrEMBL
  WD_REPEATS_REGION UniProtKB/TrEMBL
RatGTEx ENSRNOG00000039587 RatGTEx
SMART WD40 UniProtKB/TrEMBL
Superfamily-SCOP WD40_like UniProtKB/TrEMBL
UniProt A0ABK0L239_RAT UniProtKB/TrEMBL
  A6KP51 ENTREZGENE, UniProtKB/TrEMBL
  B2RZ63 ENTREZGENE, UniProtKB/TrEMBL
  G3V6Q3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Wdr13  WD repeat domain 13   Wdr13_predicted  WD repeat domain 13 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Wdr13_predicted  WD repeat domain 13 (predicted)  RGD1560982_predicted  similar to putative WD-repeat protein (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1560982_predicted  similar to putative WD-repeat protein (predicted)  LOC317370  similar to putative WD-repeat protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC317370  similar to putative WD-repeat protein      Symbol and Name status set to provisional 70820 PROVISIONAL