RGD1563302 (RGD1563302) - Rat Genome Database

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Pathways
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Gene: RGD1563302 (RGD1563302) Rattus norvegicus
Analyze
No known orthologs.
Symbol: RGD1563302
Name: RGD1563302
RGD ID: 1563302
Description: INTERACTS WITH vinclozolin
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical LOC361049; hypothetical protein LOC361049; LOC361049; uncharacterized protein LOC361049
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81537,409,708 - 37,418,463 (-)NCBIGRCr8
mRatBN7.21533,294,197 - 33,302,939 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1533,294,198 - 33,302,894 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1535,285,854 - 35,294,495 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01536,436,513 - 36,445,154 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01534,694,302 - 34,702,990 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01539,597,084 - 39,606,027 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1539,597,091 - 39,606,003 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01543,414,397 - 43,423,341 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41538,265,683 - 38,274,383 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1532,989,222 - 32,997,829 (-)NCBICelera
Cytogenetic Map15p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
vinclozolin  (EXP)

References
Additional References at PubMed
PMID:8889548  


Genomics

Variants

.
Variants in RGD1563302
54 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:66
Count of miRNA genes:52
Interacting mature miRNAs:57
Transcripts:ENSRNOT00000059490
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15134723002Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15134723002Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15134723002Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15141686771Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15142356671Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1530632945306329Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15226636846921453Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)15553075650530756Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)151985656634924750Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)151985656646187442Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)152803066582262678Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)152803066582262678Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 7
Low 1 1 1 1 4 1
Below cutoff 5 40 24 13 24 3 4 32 26 18 7 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000059490   ⟹   ENSRNOP00000056247
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1533,294,198 - 33,302,894 (-)Ensembl
Rnor_6.0 Ensembl1539,597,091 - 39,606,003 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000098422   ⟹   ENSRNOP00000097695
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1533,294,198 - 33,302,894 (-)Ensembl
RefSeq Acc Id: NM_001162899   ⟹   NP_001156371
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81537,409,708 - 37,418,401 (-)NCBI
mRatBN7.21533,294,201 - 33,302,894 (-)NCBI
Rnor_6.01539,597,084 - 39,606,003 (-)NCBI
Rnor_5.01543,414,397 - 43,423,341 (-)NCBI
RGSC_v3.41538,265,683 - 38,274,383 (-)RGD
Celera1532,989,222 - 32,997,829 (-)RGD
Sequence:
RefSeq Acc Id: XM_006252122   ⟹   XP_006252184
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81537,409,708 - 37,418,463 (-)NCBI
mRatBN7.21533,294,197 - 33,302,939 (-)NCBI
Rnor_6.01539,597,084 - 39,606,027 (-)NCBI
Rnor_5.01543,414,397 - 43,423,341 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001156371 (Get FASTA)   NCBI Sequence Viewer  
  XP_006252184 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM14375 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000056247
  ENSRNOP00000056247.3
  ENSRNOP00000097695.1
Reference Protein Sequences
RefSeq Acc Id: NP_001156371   ⟸   NM_001162899
- UniProtKB: A0A8I6ATG3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252184   ⟸   XM_006252122
- Peptide Label: isoform X1
- UniProtKB: D3ZX89 (UniProtKB/TrEMBL),   A0A8I6ATG3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000056247   ⟸   ENSRNOT00000059490
RefSeq Acc Id: ENSRNOP00000097695   ⟸   ENSRNOT00000098422

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZX89-F1-model_v2 AlphaFold D3ZX89 1-160 view protein structure

Transcriptome

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

Promoters
RGD ID:13699731
Promoter ID:EPDNEW_R10254
Type:initiation region
Name:RGD1563302_1
Description:RGD1563302
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_6.01539,606,027 - 39,606,087EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1563302 AgrOrtholog
BioCyc Gene G2FUF-13567 BioCyc
Ensembl Genes ENSRNOG00000038917 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000059490.3 UniProtKB/TrEMBL
  ENSRNOT00000098422.1 UniProtKB/TrEMBL
NCBI Gene 361049 ENTREZGENE
PhenoGen RGD1563302 PhenoGen
RatGTEx ENSRNOG00000038917 RatGTEx
UniProt A0A8I6ATG3 ENTREZGENE, UniProtKB/TrEMBL
  D3ZX89 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 RGD1563302  RGD1563302   RGD1563302_predicted  RGD1563302 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1563302_predicted  RGD1563302 (predicted)  LOC361049  hypothetical LOC361049  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC361049  hypothetical LOC361049      Symbol and Name status set to provisional 70820 PROVISIONAL