 Gene-Chemical Interaction Annotations | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Gene Ontology AnnotationsMolecular Pathway Annotations |
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Analyze GeneStrainQTL List |
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Gene Annotator (Annotation Comparison) |
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GOLF (Gene-Ortholog Location Finder) |
Gene Ontology AnnotationsMolecular Pathway AnnotationsDisease Annotations
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Gene-Chemical Interaction Annotations
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Gene Ontology AnnotationsBiological Process
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Cellular Component
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Molecular Function
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Molecular Pathway Annotations
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References - curated| 1. | Anger AM, etal., Nature. 2013 May 2;497(7447):80-5. doi: 10.1038/nature12104. |
| 2. | Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27. |
| 3. | Hultin T Biochim Biophys Acta. 1986 Aug 15;872(3):226-35. |
| 4. | Kargel HJ, etal., FEBS Lett. 1987 Aug 10;220(1):126-8. |
| 5. | RGD automated data pipeline |
| 6. | RGD automated import pipeline for gene-chemical interactions |
| 7. | RGD comprehensive gene curation |
| 8. | RGD, Sept. 2003 |
| 9. | Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11. |
| 10. | Uchiumi T, etal., J Biochem. 1980 Oct;88(4):1033-44. |
| 11. | Yoshimura Y, etal., J Neurochem. 2004 Feb;88(3):759-68. |
References - uncurated| PubMed | 1520347 6355773 9798653 12962325 15489334 16791210 16963496 20458337 21423176 21630459 21700703 22082260 22658674 22681889 22871113 23349634 24625528 |
Genomics
Comparative Map Data| Rpl3 (Rattus norvegicus - Norway rat) |
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| RPL3 (Homo sapiens - human) |
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| Rpl3 (Mus musculus - house mouse) |
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| Rpl3 (Chinchilla lanigera - long-tailed chinchilla) |
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| RPL3 (Pan paniscus - bonobo/pygmy chimpanzee) |
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| RPL3 (Canis lupus familiaris - dog) |
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| Rpl3 (Ictidomys tridecemlineatus - thirteen-lined ground squirrel) |
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| RPL3 (Sus scrofa - pig) |
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| Rpl3 (Heterocephalus glaber - naked mole-rat) |
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Position Markers| BI283926 |
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| UniSTS:498308 |
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| D14S1219 |
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QTLs in Region (Rnor_6.0)| The following QTLs overlap with this region. |  | Full Report | | CSV | | TAB | | Printer | | Gviewer |
miRNA Target Status
Predicted Target Of
| 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. |
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Expression
RNA-SEQ ExpressionHigh: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM
| alimentary part of gastrointestinal system | circulatory system | endocrine system | exocrine system | hemolymphoid system | hepatobiliary system | integumental system | musculoskeletal system | nervous system | renal system | reproductive system | respiratory system | appendage | |
| High | 2 | 8 | 2 | 16 | 2 | 4 | 1 | ||||||
| Medium | 1 | 43 | 50 | 39 | 3 | 39 | 8 | 11 | 74 | 35 | 37 | 10 | 8 |
| Low | |||||||||||||
| Below cutoff |
View RNA-SEQ Expression Data
Sequence
Nucleotide Sequences| RefSeq Transcripts | NM_198753 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
| GenBank Nucleotide | AAHX01051776 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
| AC127784 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| BC058494 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| CH473950 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ209477 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ211542 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ211764 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ212671 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ213017 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ213135 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ214177 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ214350 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ214687 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ215062 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ215305 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ218147 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ219083 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ219302 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ219523 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ220029 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ220099 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ220378 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ220408 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ220423 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ220830 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ221195 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ222720 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ222993 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ223182 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ223386 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ223514 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ225290 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ225371 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ225405 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ225635 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ226331 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ227897 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ228916 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ229153 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ229505 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ229795 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ229869 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ229906 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ230150 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ231551 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ232038 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ232101 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ232351 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ233196 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ234897 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ235165 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
Reference Sequences
| RefSeq Acc Id: | ENSRNOT00000067032 ⟹ ENSRNOP00000060662 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | ENSRNOT00000089407 ⟹ ENSRNOP00000069877 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | ENSRNOT00000092252 ⟹ ENSRNOP00000075786 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | ENSRNOT00000092268 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | ENSRNOT00000092307 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | ENSRNOT00000092507 ⟹ ENSRNOP00000075863 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | ENSRNOT00000092616 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | ENSRNOT00000092716 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | NM_198753 ⟹ NP_942048 | ||||||||||||||||||||
| RefSeq Status: | PROVISIONAL | ||||||||||||||||||||
| Type: | CODING | ||||||||||||||||||||
| Position: |
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| Sequence: |
CTCTATCGGCGGCGTGTGGCGGCGAGATGTCTCACAGGAAATTCTCAGCTCCTAGGCATGGGTChide sequence |
Protein Sequences| Protein RefSeqs | NP_942048 | (Get FASTA) | NCBI Sequence Viewer |
| GenBank Protein | AAH58494 | (Get FASTA) | NCBI Sequence Viewer |
| EDM15768 | (Get FASTA) | NCBI Sequence Viewer | |
| EDM15769 | (Get FASTA) | NCBI Sequence Viewer | |
| P21531 | (Get FASTA) | NCBI Sequence Viewer |
Reference Sequences
| RefSeq Acc Id: | NP_942048 ⟸ NM_198753 |
| - UniProtKB: | P21531 (UniProtKB/Swiss-Prot) |
| - Sequence: |
MSHRKFSAPRHGSLGFLPRKRSSRHRGKVKSFPKDDPSKPVHLTAFLGYKAGMTHIVREVDRPGhide sequence |
| RefSeq Acc Id: | ENSRNOP00000075786 ⟸ ENSRNOT00000092252 |
| RefSeq Acc Id: | ENSRNOP00000060662 ⟸ ENSRNOT00000067032 |
| RefSeq Acc Id: | ENSRNOP00000075863 ⟸ ENSRNOT00000092507 |
| RefSeq Acc Id: | ENSRNOP00000069877 ⟸ ENSRNOT00000089407 |
TranscriptomePromoters| RGD ID: | 13695493 | ||||||||
| Promoter ID: | EPDNEW_R6017 | ||||||||
| Type: | single initiation site | ||||||||
| Name: | Rpl3_1 | ||||||||
| Description: | ribosomal protein L3 | ||||||||
| SO ACC ID: | SO:0000170 | ||||||||
| Source: | EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/) | ||||||||
| Experiment Methods: | Single-end sequencing. | ||||||||
| Position: |
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Strain Variation
Strain Sequence Variants (Rnor 6.0)
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Damaging VariantsAssembly: Rnor_6.0
| Chromosome | Start Pos | End Pos | Reference Nucleotide | Variant Nucleotide | Variant Type | Strain |
| 7 | 121299662 | 121299663 | T | C | snv | LEW/Crl (RGD) |
Additional Information
External Database Links| Database | Acc Id | Source(s) |
| AGR Gene | RGD:735105 | AgrOrtholog |
| Ensembl Genes | ENSRNOG00000016896 | Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
| Ensembl Protein | ENSRNOP00000060662 | ENTREZGENE, UniProtKB/Swiss-Prot |
| ENSRNOP00000069877 | UniProtKB/Swiss-Prot | |
| ENSRNOP00000075786 | UniProtKB/TrEMBL | |
| ENSRNOP00000075863 | UniProtKB/TrEMBL | |
| Ensembl Transcript | ENSRNOT00000067032 | ENTREZGENE, UniProtKB/Swiss-Prot |
| ENSRNOT00000089407 | UniProtKB/Swiss-Prot | |
| ENSRNOT00000092252 | UniProtKB/TrEMBL | |
| ENSRNOT00000092507 | UniProtKB/TrEMBL | |
| IMAGE_CLONE | IMAGE:6887923 | IMAGE-MGC_LOAD |
| InterPro | Ribosomal_L3 | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
| Ribosomal_L3_CS | UniProtKB/Swiss-Prot | |
| Transl_B-barrel_sf | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL | |
| KEGG Report | rno:300079 | UniProtKB/Swiss-Prot |
| MGC_CLONE | MGC:72934 | IMAGE-MGC_LOAD |
| NCBI Gene | 300079 | ENTREZGENE |
| Pfam | Ribosomal_L3 | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
| PhenoGen | Rpl3 | PhenoGen |
| PROSITE | RIBOSOMAL_L3 | UniProtKB/Swiss-Prot |
| Superfamily-SCOP | SSF50447 | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
| UniGene | Rn.107726 | ENTREZGENE |
| UniProt | A0A0U1RRR9_RAT | UniProtKB/TrEMBL |
| A0A0U1RRY5_RAT | UniProtKB/TrEMBL | |
| P21531 | ENTREZGENE, UniProtKB/Swiss-Prot |
Nomenclature History| Date | Current Symbol | Current Name | Previous Symbol | Previous Name | Description | Reference | Status |
|---|---|---|---|---|---|---|---|
| 2004-09-10 | Rpl3 | ribosomal protein L3 | Symbol and Name status set to approved | 1299863 | APPROVED |
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| More on Rpl3 | |
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Alliance Gene |
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NCBI Gene |
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Ensembl Gene |
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JBrowse: rn5 rn6 |
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NCBI Genome Data Viewer |
| RGD Object Information | |
| RGD ID: | 735105 |
| Created: | 2004-02-05 |
| Species: | Rattus norvegicus |
| Last Modified: | 2020-08-20 |
| Status: | ACTIVE |
