Upk1a (uroplakin 1A) - Rat Genome Database

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Gene: Upk1a (uroplakin 1A) Mus musculus
Analyze
Symbol: Upk1a
Name: uroplakin 1A
RGD ID: 1620672
MGI Page MGI
Description: Predicted to be involved in epithelial cell differentiation. Located in apical plasma membrane. Is active in apical plasma membrane urothelial plaque. Is expressed in heart ventricle; lower urinary tract; lung; and rectum. Orthologous to human UPK1A (uroplakin 1A).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 1110031P12Rik; AU019298; C87192; Tsp; Tspan21; UP1a; UPIa; Upk; Upk1; UPKa; uroplakin Ia; uroplakin-1a
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39730,302,517 - 30,312,159 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl730,302,517 - 30,312,272 (-)EnsemblGRCm39 Ensembl
GRCm38730,603,092 - 30,612,734 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl730,603,092 - 30,612,847 (-)EnsemblGRCm38mm10GRCm38
MGSCv37731,388,111 - 31,397,753 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36730,311,852 - 30,321,494 (-)NCBIMGSCv36mm8
Celera725,194,627 - 25,204,370 (-)NCBICelera
Cytogenetic Map7B1NCBI
cM Map718.78NCBI
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:8175808   PMID:8281015   PMID:9218460   PMID:10349636   PMID:10725249   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11718558   PMID:11739641   PMID:11955018  
PMID:12466851   PMID:12477932   PMID:14610273   PMID:16141072   PMID:16141073   PMID:16567801   PMID:18799693   PMID:19494835   PMID:21267068   PMID:21853341   PMID:21873635   PMID:22323295  
PMID:23449535   PMID:24914955   PMID:26549759   PMID:27511831   PMID:31597917   PMID:35905011   PMID:36042152   PMID:36094016  


Genomics

Comparative Map Data
Upk1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39730,302,517 - 30,312,159 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl730,302,517 - 30,312,272 (-)EnsemblGRCm39 Ensembl
GRCm38730,603,092 - 30,612,734 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl730,603,092 - 30,612,847 (-)EnsemblGRCm38mm10GRCm38
MGSCv37731,388,111 - 31,397,753 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36730,311,852 - 30,321,494 (-)NCBIMGSCv36mm8
Celera725,194,627 - 25,204,370 (-)NCBICelera
Cytogenetic Map7B1NCBI
cM Map718.78NCBI
UPK1A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381935,666,517 - 35,678,481 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1935,666,517 - 35,678,481 (+)EnsemblGRCh38hg38GRCh38
GRCh371936,157,419 - 36,169,383 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361940,849,555 - 40,861,207 (+)NCBINCBI36Build 36hg18NCBI36
Build 341940,849,554 - 40,861,207NCBI
Celera1932,871,189 - 32,882,842 (+)NCBICelera
Cytogenetic Map19q13.12NCBI
HuRef1932,662,926 - 32,674,516 (+)NCBIHuRef
CHM1_11936,158,949 - 36,170,840 (+)NCBICHM1_1
T2T-CHM13v2.01938,211,498 - 38,223,458 (+)NCBIT2T-CHM13v2.0
Upk1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8194,987,110 - 94,998,083 (-)NCBIGRCr8
mRatBN7.2185,859,672 - 85,870,147 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl185,859,671 - 85,870,354 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx191,276,296 - 91,286,720 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0199,742,465 - 99,752,893 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0193,034,580 - 93,045,010 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0189,060,581 - 89,071,579 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl189,060,581 - 89,068,348 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0190,215,600 - 90,226,385 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4185,654,294 - 85,662,252 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1185,732,415 - 85,743,346 (-)NCBI
Celera180,231,387 - 80,239,144 (-)NCBICelera
Cytogenetic Map1q21NCBI
Upk1a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554682,868,806 - 2,877,605 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554682,868,839 - 2,878,518 (-)NCBIChiLan1.0ChiLan1.0
UPK1A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22041,661,750 - 41,674,544 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11943,645,856 - 43,660,361 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01932,596,034 - 32,608,228 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11941,331,732 - 41,343,396 (+)NCBIpanpan1.1PanPan1.1panPan2
UPK1A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11116,937,895 - 116,947,457 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1116,938,647 - 116,947,104 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1116,343,866 - 116,352,668 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01117,541,809 - 117,550,650 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1117,542,278 - 117,551,556 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11117,104,877 - 117,113,706 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01116,728,766 - 116,737,612 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01117,784,207 - 117,793,049 (-)NCBIUU_Cfam_GSD_1.0
Upk1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934911,003,275 - 11,011,971 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936570634,067 - 642,605 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936570633,933 - 641,429 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
UPK1A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl645,104,021 - 45,114,122 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1645,105,118 - 45,113,631 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2640,561,492 - 40,570,005 (+)NCBISscrofa10.2Sscrofa10.2susScr3
UPK1A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1630,587,684 - 30,600,729 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl630,588,394 - 30,600,780 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660738,376,182 - 8,389,623 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Upk1a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247949,981,755 - 9,991,496 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247949,981,740 - 9,991,512 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Upk1a
301 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:226
Count of miRNA genes:184
Interacting mature miRNAs:188
Transcripts:ENSMUST00000006476
Prediction methods:Miranda, Rnahybrid
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10412199Sst2_msusceptibility to tuberculosis 2 (mouse)Not determined718728794119485380Mouse
1301622Eae12_msusceptibility to experimental allergic encephalomyelitis 12 (mouse)Not determined71928001553280104Mouse
4141805Sle19_msystematic lupus erythematosus susceptibility 19 (mouse)Not determined3003248581135653Mouse
1558893Spir1_mStreptococcus pneumoniae infection resistance 1 (mouse)Not determined71030579844305936Mouse
1357699Nhdlq6_mnon-HDL QTL 6 (mouse)Not determined7998886743988984Mouse
25314314Sccor1_msynaptonemal complex length to mean MLH1 count ratio 1 (mouse)71333392547349748Mouse
1301052Bhr6_mbronchial hyperresponsiveness 6 (mouse)Not determined71984225053842367Mouse
26884404Huml1_mhumerus length 1, 5 week (mouse)730199425108999207Mouse
11522751Cocia17_mcocaine-induced activity, QTL 17 (mouse)71313520447135204Mouse
7394747asp3_maudiogenic seizure prone 3 (mouse)Not determined72730579836842367Mouse
1301709Bdt4_mbone density traits 4 (mouse)Not determined72288857256888716Mouse
1301572Sluc30_msusceptibility to lung cancer 30 (mouse)Not determined7243169636431844Mouse
1559016Drsi_mDCC-related Spp1 induction (mouse)Not determined71663729349159331Mouse
11354952Pdcc1_mplasmacytoid dentritic cell compartment 1 (mouse)72306653157066531Mouse
1301158Eae4_msusceptibility to experimental allergic encephalomyelitis 4 (mouse)Not determined719147398141919804Mouse
1300722Sle3_msystemic lupus erythmatosus susceptibility 3 (mouse)Not determined7351172887142720Mouse
12792978Fbmd3_mfemoral bone mineral density 3, females only (mouse)77050288142367832Mouse
25314307Mlh1fc2_mMLH1 foci count 2 (mouse)76502999133501729Mouse
10449158Eosn3_meosinophil differential 3 (mouse)71248087746480877Mouse
12904742Litsq2_mlitter size QTL 2 (mouse)72267388756674033Mouse
10449139Eosn1_meosinophil differential 1 (mouse)71248087746480877Mouse
1301969Lbw5_mlupus NZB x NZW 5 (mouse)Not determined72684761560851775Mouse
38501068Tip1_mtuberculosis immunophenotype 1, spleen CFU (mouse)7360299972549748Mouse
4141566Femwf8_mfemur work to failure 8 (mouse)Not determined1303248547032621Mouse
1301041Prnr2_mprion resistance 2 (mouse)Not determined71872879439674033Mouse
12790989Tgl6_mtriglyceride 6 (mouse)72754054961540549Mouse

Markers in Region
C87192  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38730,603,207 - 30,603,433UniSTSGRCm38
MGSCv37731,388,226 - 31,388,452UniSTSGRCm37
Celera725,194,742 - 25,194,968UniSTS
Cytogenetic Map7B1UniSTS
cM Map710.0UniSTS
Whitehead/MRC_RH7416.86UniSTS
RH136475  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38730,603,277 - 30,603,468UniSTSGRCm38
MGSCv37731,388,296 - 31,388,487UniSTSGRCm37
Celera725,194,812 - 25,195,003UniSTS
Cytogenetic Map7B1UniSTS
cM Map710.0UniSTS
Upk1a  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map7B1UniSTS
cM Map710.0UniSTS


Expression


Sequence


RefSeq Acc Id: ENSMUST00000006476   ⟹   ENSMUSP00000006476
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl730,302,517 - 30,312,272 (-)Ensembl
GRCm38.p6 Ensembl730,603,092 - 30,612,847 (-)Ensembl
RefSeq Acc Id: NM_026815   ⟹   NP_081091
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39730,302,517 - 30,312,159 (-)NCBI
GRCm38730,603,092 - 30,612,734 (-)ENTREZGENE
MGSCv37731,388,111 - 31,397,753 (-)RGD
Celera725,194,627 - 25,204,370 (-)RGD
cM Map7 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_081091 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI32048 (Get FASTA)   NCBI Sequence Viewer  
  AAI38391 (Get FASTA)   NCBI Sequence Viewer  
  AAM08129 (Get FASTA)   NCBI Sequence Viewer  
  BAB23125 (Get FASTA)   NCBI Sequence Viewer  
  EDL24004 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000006476
  ENSMUSP00000006476.5
GenBank Protein Q9D132 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_081091   ⟸   NM_026815
- UniProtKB: Q9D132 (UniProtKB/Swiss-Prot),   A2RSB9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000006476   ⟸   ENSMUST00000006476

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9D132-F1-model_v2 AlphaFold Q9D132 1-257 view protein structure

Promoters
RGD ID:8663493
Promoter ID:EPDNEW_M9777
Type:multiple initiation site
Name:Upk1a_1
Description:Mus musculus uroplakin 1A , 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
GRCm38730,612,734 - 30,612,794EPDNEW
RGD ID:6842306
Promoter ID:MM_KWN:49843
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Kidney
Transcripts:ENSMUST00000006476,   NM_026815
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36731,398,396 - 31,398,896 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:98911 AgrOrtholog
Ensembl Genes ENSMUSG00000006313 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000006476 ENTREZGENE
  ENSMUST00000006476.6 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.1450.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Tetraspanin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tetraspanin/Peripherin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tetraspanin_EC2_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:109637 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:98911 ENTREZGENE
NCBI Gene 109637 ENTREZGENE
PANTHER PTHR19282 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR19282:SF25 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Tetraspanin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Upk1a PhenoGen
PIRSF Tetraspanin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS TMFOUR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48652 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A2RSB9 ENTREZGENE, UniProtKB/TrEMBL
  Q9D132 ENTREZGENE, UniProtKB/Swiss-Prot