LOC100365839 (40S ribosomal protein S3a-like) - Rat Genome Database

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Gene: LOC100365839 (40S ribosomal protein S3a-like) Rattus norvegicus
Analyze
No known orthologs.
Symbol: LOC100365839
Name: 40S ribosomal protein S3a-like
RGD ID: 2318248
Description: Predicted to be active in cytosol. Orthologous to human RPS3A (ribosomal protein S3A).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: small ribosomal subunit protein eS1-like
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81189,647,483 - 89,648,409 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1189,647,524 - 89,659,085 (+)EnsemblGRCr8
mRatBN7.21176,142,800 - 76,143,706 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1176,142,814 - 76,143,709 (+)EnsemblmRatBN7.2
Rnor_6.01179,547,665 - 79,548,571 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1179,547,699 - 79,548,560 (+)Ensemblrn6Rnor6.0
Rnor_5.01181,181,659 - 81,182,565 (-)NCBIRnor_5.0Rnor_5.0rn5
Celera1175,033,359 - 75,034,265 (+)NCBICelera
Cytogenetic Map11q23NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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:25002582  


Genomics

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:61
Count of miRNA genes:56
Interacting mature miRNAs:58
Transcripts:ENSRNOT00000074617
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 (GRCr8)
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)114644316891443168Rat
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)117330848796070872Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)115827236396350770Rat
4889859Pur28Proteinuria QTL 2819.50.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)115892833699753367Rat
10755497Bp388Blood pressure QTL 3882.76arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)113294306789836615Rat
1549848Bvd6Brain ventricular dilatation QTL 63.10.0001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)117961851999753367Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)117385089499753367Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)115441539196071021Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)115893182292356038Rat
1354656Bvd3Brain ventricular dilatation QTL 33.640.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)118295102896351019Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)115775483796071021Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112019354996351019Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)116796218499753367Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)116859932196497754Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)116985594399753367Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)117330831599753367Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)115827236396350770Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)115107102196071021Rat


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 66 162 90 89 59 92 59 6 354 190 11 142 81 92 30 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000074617   ⟹   ENSRNOP00000065066
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1189,647,527 - 89,659,085 (+)Ensembl
mRatBN7.2 Ensembl1176,142,814 - 76,143,709 (+)Ensembl
Rnor_6.0 Ensembl1179,547,699 - 79,548,560 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000098019   ⟹   ENSRNOP00000090044
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1189,647,524 - 89,648,413 (+)Ensembl
RefSeq Acc Id: XM_039088726   ⟹   XP_038944654
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81189,647,483 - 89,648,409 (+)NCBI
mRatBN7.21176,142,800 - 76,143,706 (+)NCBI
Protein Sequences
Protein RefSeqs XP_038944654 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000065066
  ENSRNOP00000065066.1
  ENSRNOP00000087509.1
  ENSRNOP00000090044.2
Ensembl Acc Id: ENSRNOP00000065066   ⟸   ENSRNOT00000074617
RefSeq Acc Id: XP_038944654   ⟸   XM_039088726
- UniProtKB: M0R6L4 (UniProtKB/TrEMBL),   A0A8I6A843 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000090044   ⟸   ENSRNOT00000098019

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R6L4-F1-model_v2 AlphaFold M0R6L4 1-264 view protein structure

Transcriptome

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

Promoters
RGD ID:13698247
Promoter ID:EPDNEW_R8763
Type:multiple initiation site
Name:LOC100365839_1
Description:40S ribosomal protein S3a-like
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_6.01179,547,699 - 79,547,759EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2318248 AgrOrtholog
BioCyc Gene G2FUF-20911 BioCyc
Ensembl Genes ENSRNOG00000011893 UniProtKB/TrEMBL
  ENSRNOG00000048109 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000074617 ENTREZGENE
  ENSRNOT00000074617.4 UniProtKB/TrEMBL
  ENSRNOT00000098019.2 UniProtKB/TrEMBL
  ENSRNOT00000110041.2 UniProtKB/TrEMBL
InterPro Ribosomal_S1/3_euk UniProtKB/TrEMBL
  Ribosomal_S3Ae UniProtKB/TrEMBL
  Ribosomal_S3Ae_CS UniProtKB/TrEMBL
NCBI Gene 100365839 ENTREZGENE
PANTHER 40S RIBOSOMAL PROTEIN S3A UniProtKB/TrEMBL
Pfam Ribosomal_S3Ae UniProtKB/TrEMBL
PhenoGen LOC100365839 PhenoGen
PROSITE RIBOSOMAL_S3AE UniProtKB/TrEMBL
RatGTEx ENSRNOG00000011893 RatGTEx
  ENSRNOG00000048109 RatGTEx
SMART Ribosomal_S3Ae UniProtKB/TrEMBL
UniProt A0A8I6A843 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6ABN0_RAT UniProtKB/TrEMBL
  M0R6L4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-05-05 LOC100365839  40S ribosomal protein S3a-like      Symbol and Name status set to provisional 70820 PROVISIONAL