Rtp3 (receptor (chemosensory) transporter protein 3) - Rat Genome Database

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Gene: Rtp3 (receptor (chemosensory) transporter protein 3) Rattus norvegicus
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Symbol: Rtp3
Name: receptor (chemosensory) transporter protein 3
RGD ID: 1310546
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 cytoplasm. Orthologous to human RTP3 (receptor transporter protein 3); INTERACTS WITH (+)-schisandrin B; 1-naphthyl isothiocyanate; 17beta-estradiol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC316018; receptor transporter protein 3; receptor-transporting protein 3; Tmem7; transmembrane protein 7
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
GRCr88119,847,947 - 119,853,549 (-)NCBIGRCr8
mRatBN7.28110,970,154 - 110,975,000 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8110,970,160 - 110,974,699 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8116,584,100 - 116,588,641 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08114,783,312 - 114,787,853 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08112,626,130 - 112,630,671 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08119,260,609 - 119,265,501 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8119,260,618 - 119,265,157 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08118,603,373 - 118,608,250 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48115,388,088 - 115,392,602 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18115,408,106 - 115,411,353 (-)NCBI
Celera8110,252,497 - 110,257,013 (-)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16720576  


Genomics

Comparative Map Data
Rtp3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88119,847,947 - 119,853,549 (-)NCBIGRCr8
mRatBN7.28110,970,154 - 110,975,000 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8110,970,160 - 110,974,699 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8116,584,100 - 116,588,641 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08114,783,312 - 114,787,853 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08112,626,130 - 112,630,671 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08119,260,609 - 119,265,501 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8119,260,618 - 119,265,157 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08118,603,373 - 118,608,250 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48115,388,088 - 115,392,602 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18115,408,106 - 115,411,353 (-)NCBI
Celera8110,252,497 - 110,257,013 (-)NCBICelera
Cytogenetic Map8q32NCBI
RTP3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38346,497,976 - 46,500,950 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl346,494,611 - 46,500,950 (+)EnsemblGRCh38hg38GRCh38
GRCh37346,539,466 - 46,542,440 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36346,514,489 - 46,517,443 (+)NCBINCBI36Build 36hg18NCBI36
Build 34346,514,488 - 46,517,443NCBI
Celera346,477,225 - 46,480,179 (+)NCBICelera
Cytogenetic Map3p21.31NCBI
HuRef346,581,734 - 46,584,688 (+)NCBIHuRef
CHM1_1346,489,673 - 46,492,627 (+)NCBICHM1_1
T2T-CHM13v2.0346,514,086 - 46,517,060 (+)NCBIT2T-CHM13v2.0
Rtp3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399110,814,003 - 110,818,781 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9110,814,003 - 110,819,651 (-)EnsemblGRCm39 Ensembl
GRCm389110,984,935 - 110,990,265 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9110,984,935 - 110,990,583 (-)EnsemblGRCm38mm10GRCm38
MGSCv379110,887,442 - 110,892,217 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369110,829,754 - 110,834,529 (-)NCBIMGSCv36mm8
Celera9110,708,362 - 110,712,918 (-)NCBICelera
Cytogenetic Map9F2NCBI
cM Map960.79NCBI
Rtp3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495542025,545,752 - 25,550,044 (-)NCBIChiLan1.0ChiLan1.0
RTP3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2246,454,390 - 46,457,386 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1346,459,160 - 46,462,156 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0346,397,231 - 46,400,221 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1347,502,087 - 47,505,062 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl347,502,087 - 47,505,062 (+)Ensemblpanpan1.1panPan2
RTP3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12042,197,170 - 42,202,569 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2042,197,409 - 42,202,543 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2042,112,722 - 42,118,575 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02042,679,115 - 42,684,967 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2042,679,112 - 42,684,937 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12041,920,361 - 41,926,216 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02042,321,768 - 42,327,639 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02042,602,656 - 42,608,519 (-)NCBIUU_Cfam_GSD_1.0
Rtp3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118200,844,289 - 200,859,809 (+)NCBIHiC_Itri_2
SpeTri2.0NW_004936596392,885 - 408,892 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RTP3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11329,471,568 - 29,476,277 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21332,699,153 - 32,702,415 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RTP3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1227,925,733 - 7,930,132 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl227,926,804 - 7,931,187 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041159,220,334 - 159,223,643 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rtp3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473074,605,692 - 74,609,946 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Rtp3
32 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:205
Count of miRNA genes:142
Interacting mature miRNAs:152
Transcripts:ENSRNOT00000056100
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
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)873473045118473045Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)871888757116888757Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)871888757116888757Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088626Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)889265192114019816Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)871888757116888757Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)871888757116888757Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat

Markers in Region
RH134068  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28110,970,234 - 110,970,431 (+)MAPPERmRatBN7.2
Rnor_6.08119,260,693 - 119,260,889NCBIRnor6.0
Rnor_5.08118,603,457 - 118,603,653UniSTSRnor5.0
RGSC_v3.48115,388,169 - 115,388,365UniSTSRGSC3.4
Celera8110,252,578 - 110,252,774UniSTS
RH 3.4 Map81191.1UniSTS
Cytogenetic Map8q32UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 98 91 90 59 25 59 6 218 97 78 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000056100   ⟹   ENSRNOP00000052950
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8110,970,160 - 110,974,699 (-)Ensembl
Rnor_6.0 Ensembl8119,260,618 - 119,265,157 (-)Ensembl
RefSeq Acc Id: NM_001108190   ⟹   NP_001101660
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88119,848,550 - 119,853,095 (-)NCBI
mRatBN7.28110,970,154 - 110,974,699 (-)NCBI
Rnor_6.08119,260,612 - 119,265,157 (-)NCBI
Rnor_5.08118,603,373 - 118,608,250 (-)NCBI
RGSC_v3.48115,388,088 - 115,392,602 (-)RGD
Celera8110,252,497 - 110,257,013 (-)RGD
Sequence:
RefSeq Acc Id: XM_006243965   ⟹   XP_006244027
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88119,847,947 - 119,853,549 (-)NCBI
mRatBN7.28110,970,154 - 110,975,000 (-)NCBI
Rnor_6.08119,260,609 - 119,265,501 (-)NCBI
Rnor_5.08118,603,373 - 118,608,250 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001101660 (Get FASTA)   NCBI Sequence Viewer  
  XP_006244027 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL77043 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000052950.2
RefSeq Acc Id: NP_001101660   ⟸   NM_001108190
- UniProtKB: D4A1N0 (UniProtKB/TrEMBL),   A6I3I4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006244027   ⟸   XM_006243965
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000052950   ⟸   ENSRNOT00000056100
Protein Domains
3CxxC-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A1N0-F1-model_v2 AlphaFold D4A1N0 1-465 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:1310546 AgrOrtholog
BioCyc Gene G2FUF-29039 BioCyc
Ensembl Genes ENSRNOG00000037167 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000056100.3 UniProtKB/TrEMBL
InterPro R-trans_p UniProtKB/TrEMBL
  zf-3CxxC UniProtKB/TrEMBL
KEGG Report rno:316018 UniProtKB/TrEMBL
NCBI Gene 316018 ENTREZGENE
PANTHER PTHR14402 UniProtKB/TrEMBL
  PTHR14402:SF9 UniProtKB/TrEMBL
Pfam zf-3CxxC UniProtKB/TrEMBL
PhenoGen Rtp3 PhenoGen
RatGTEx ENSRNOG00000037167 RatGTEx
SMART zf-3CxxC UniProtKB/TrEMBL
UniProt A6I3I4 ENTREZGENE, UniProtKB/TrEMBL
  D4A1N0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-10-30 Rtp3  receptor (chemosensory) transporter protein 3  Rtp3  receptor transporter protein 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-04 Rtp3  receptor transporter protein 3  Tmem7_predicted  transmembrane protein 7 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-12 Tmem7_predicted  transmembrane protein 7 (predicted)      Symbol and Name status set to approved 70820 APPROVED