Rtp1 (receptor (chemosensory) transporter protein 1) - Rat Genome Database

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Gene: Rtp1 (receptor (chemosensory) transporter protein 1) Rattus norvegicus
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Symbol: Rtp1
Name: receptor (chemosensory) transporter protein 1
RGD ID: 1560980
Description: Predicted to enable olfactory receptor binding activity. Predicted to be involved in detection of chemical stimulus involved in sensory perception of bitter taste; protein insertion into membrane; and protein targeting to membrane. Predicted to be active in cell surface. Orthologous to human RTP1 (receptor transporter protein 1); INTERACTS WITH bisphenol A; indole-3-methanol; methamphetamine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC288006; receptor transporter protein 1; receptor-transporting protein 1; RGD1560980; similar to receptor transporting protein 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81190,927,633 - 90,930,149 (-)NCBIGRCr8
mRatBN7.21177,422,982 - 77,425,498 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1177,422,982 - 77,425,498 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1186,173,497 - 86,176,013 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01178,807,469 - 78,809,985 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01177,887,783 - 77,890,299 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01180,823,989 - 80,826,505 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1180,823,989 - 80,826,505 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01179,908,402 - 79,910,918 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41179,620,059 - 79,622,575 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1176,299,085 - 76,301,601 (-)NCBICelera
Cytogenetic Map11q23NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cell surface  (IBA,ISO)
membrane  (IEA)

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15550249  


Genomics

Comparative Map Data
Rtp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81190,927,633 - 90,930,149 (-)NCBIGRCr8
mRatBN7.21177,422,982 - 77,425,498 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1177,422,982 - 77,425,498 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1186,173,497 - 86,176,013 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01178,807,469 - 78,809,985 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01177,887,783 - 77,890,299 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01180,823,989 - 80,826,505 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1180,823,989 - 80,826,505 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01179,908,402 - 79,910,918 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41179,620,059 - 79,622,575 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1176,299,085 - 76,301,601 (-)NCBICelera
Cytogenetic Map11q23NCBI
RTP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383187,197,486 - 187,201,462 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3187,197,486 - 187,201,462 (+)EnsemblGRCh38hg38GRCh38
GRCh373186,915,274 - 186,919,250 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363188,397,968 - 188,401,947 (+)NCBINCBI36Build 36hg18NCBI36
Celera3185,347,101 - 185,351,080 (+)NCBICelera
Cytogenetic Map3q27.3NCBI
HuRef3184,319,685 - 184,323,663 (+)NCBIHuRef
CHM1_13186,878,640 - 186,882,619 (+)NCBICHM1_1
T2T-CHM13v2.03190,014,908 - 190,018,884 (+)NCBIT2T-CHM13v2.0
Rtp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391623,247,883 - 23,252,710 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1623,247,883 - 23,252,710 (+)EnsemblGRCm39 Ensembl
GRCm381623,429,133 - 23,433,960 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1623,429,133 - 23,433,960 (+)EnsemblGRCm38mm10GRCm38
MGSCv371623,429,206 - 23,434,033 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361623,344,467 - 23,349,294 (+)NCBIMGSCv36mm8
Celera1623,987,546 - 23,992,374 (+)NCBICelera
Cytogenetic Map16B1NCBI
cM Map1614.21NCBI
Rtp1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542020,620,380 - 20,625,103 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542020,622,226 - 20,625,073 (-)NCBIChiLan1.0ChiLan1.0
RTP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22185,066,940 - 185,072,091 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13185,071,653 - 185,076,809 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03184,223,049 - 184,227,029 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13192,687,985 - 192,691,979 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3192,687,161 - 192,715,367 (+)Ensemblpanpan1.1panPan2
RTP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13419,675,903 - 19,678,491 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3419,674,096 - 19,679,890 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3423,766,023 - 23,771,158 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03419,593,172 - 19,598,304 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3419,595,451 - 19,598,288 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13419,622,108 - 19,627,240 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03419,616,166 - 19,621,298 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03419,855,285 - 19,860,420 (+)NCBIUU_Cfam_GSD_1.0
Rtp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602116,793,760 - 116,797,883 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365782,886,994 - 2,889,557 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365782,886,994 - 2,889,557 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RTP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13124,936,213 - 124,942,119 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113124,935,515 - 124,942,119 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213134,387,475 - 134,393,443 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RTP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11581,438,984 - 81,472,965 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1581,468,965 - 81,471,522 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604154,900,050 - 54,963,802 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rtp1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473069,655,572 - 69,658,350 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473069,655,572 - 69,658,350 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Rtp1
12 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:121
Count of miRNA genes:106
Interacting mature miRNAs:111
Transcripts:ENSRNOT00000032383
Prediction methods:Microtar, 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 (mRatBN7.2)
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)111897620886241447Rat
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)115980279482566553Rat
70180BpQTLcluster10Blood pressure QTL cluster 103.19arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)113491804179918041Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
634339Niddm50Non-insulin dependent diabetes mellitus QTL 503.32blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)116642214886241447Rat
1549848Bvd6Brain ventricular dilatation QTL 63.10.0001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)116611332182169223Rat
10450831Scl80Serum cholesterol level QTL 804.70.01blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)117695713183051965Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116034659086241447Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113123913478851519Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)114094618882566702Rat
1354656Bvd3Brain ventricular dilatation QTL 33.640.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)116944607082846715Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)114428575982566702Rat
1354593Stl12Serum triglyceride level QTL 123.36blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)116642214886241447Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115445753486241447Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)115513672982993457Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115635142486241447Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)115980279482566545Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat


Expression

RNA-SEQ Expression

circulatory system
ectoderm
mesenchyme
mesoderm
nervous system
renal system
reproductive system
2 28 4 2 28 2 8

Sequence


Ensembl Acc Id: ENSRNOT00000032383   ⟹   ENSRNOP00000029915
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1177,422,982 - 77,425,498 (-)Ensembl
Rnor_6.0 Ensembl1180,823,989 - 80,826,505 (-)Ensembl
RefSeq Acc Id: NM_001105870   ⟹   NP_001099340
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81190,927,633 - 90,930,149 (-)NCBI
mRatBN7.21177,422,982 - 77,425,498 (-)NCBI
Rnor_6.01180,823,989 - 80,826,505 (-)NCBI
Rnor_5.01179,908,402 - 79,910,918 (+)NCBI
RGSC_v3.41179,620,059 - 79,622,575 (-)RGD
Celera1176,299,085 - 76,301,601 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001099340 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL78088 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000029915.3
RefSeq Acc Id: NP_001099340   ⟸   NM_001105870
- UniProtKB: D4AEN1 (UniProtKB/TrEMBL),   A6JS19 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000029915   ⟸   ENSRNOT00000032383
Protein Domains
3CxxC-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4AEN1-F1-model_v2 AlphaFold D4AEN1 1-263 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:1560980 AgrOrtholog
BioCyc Gene G2FUF-20870 BioCyc
Ensembl Genes ENSRNOG00000021992 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000032383.4 UniProtKB/TrEMBL
InterPro R-trans_p UniProtKB/TrEMBL
  zf-3CxxC UniProtKB/TrEMBL
KEGG Report rno:288006 UniProtKB/TrEMBL
NCBI Gene 288006 ENTREZGENE
PANTHER PTHR14402 UniProtKB/TrEMBL
  PTHR14402:SF19 UniProtKB/TrEMBL
Pfam zf-3CxxC UniProtKB/TrEMBL
PhenoGen Rtp1 PhenoGen
RatGTEx ENSRNOG00000021992 RatGTEx
SMART zf-3CxxC UniProtKB/TrEMBL
UniProt A6JS19 ENTREZGENE, UniProtKB/TrEMBL
  D4AEN1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-10-30 Rtp1  receptor (chemosensory) transporter protein 1  Rtp1  receptor transporter protein 1   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Rtp1  receptor transporter protein 1   Rtp1_predicted  receptor transporter protein 1 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Rtp1_predicted  receptor transporter protein 1 (predicted)  RGD1560980_predicted  similar to receptor transporting protein 1 (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1560980_predicted  similar to receptor transporting protein 1 (predicted)  LOC288006  similar to receptor transporting protein 1  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC288006  similar to receptor transporting protein 1      Symbol and Name status set to provisional 70820 PROVISIONAL