 Gene-Chemical Interaction Annotations | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Gene Ontology AnnotationsMolecular Pathway Annotations |
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Analyze GeneStrainQTL List |
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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. | Chanarat S and Strasser K, Biochim Biophys Acta. 2013 Oct;1833(10):2126-34. doi: 10.1016/j.bbamcr.2013.05.023. Epub 2013 Jun 3. |
| 2. | Chen J, etal., J Mol Histol. 2013 Feb;44(1):1-10. doi: 10.1007/s10735-012-9444-9. Epub 2012 Sep 11. |
| 3. | Couch FJ, etal., Cancer Epidemiol Biomarkers Prev. 2010 Jan;19(1):251-7. doi: 10.1158/1055-9965.EPI-09-0629. |
| 4. | Liu G, etal., Med Oncol. 2013;30(3):537. doi: 10.1007/s12032-013-0537-4. Epub 2013 May 22. |
| 5. | Liu X, etal., J Mol Histol. 2014 Apr;45(2):169-80. doi: 10.1007/s10735-013-9546-z. Epub 2013 Oct 23. |
| 6. | Olson JE, etal., Breast Cancer Res Treat. 2010 Jan;119(2):423-30. Epub 2009 Apr 18. |
| 7. | Pestov NB, etal., Proc Natl Acad Sci U S A. 2007 Jul 3;104(27):11215-20. Epub 2007 Jun 25. |
| 8. | Pipeline to import KEGG annotations from KEGG into RGD |
| 9. | RGD automated data pipeline |
| 10. | RGD automated import pipeline for gene-chemical interactions |
| 11. | RGD comprehensive gene curation |
| 12. | Wang Y, etal., Neurochem Res. 2013 Apr;38(4):857-65. doi: 10.1007/s11064-013-0990-7. Epub 2013 Feb 7. |
| 13. | Wu Y, etal., J Mol Histol. 2014 Dec;45(6):715-21. doi: 10.1007/s10735-014-9589-9. Epub 2014 Jul 30. |
References - uncurated| PubMed | 9569025 9632709 10713164 11278756 11514567 11991638 12529369 12840015 14985122 15194481 15878163 15905409 19818711 19934264 20007319 21460037 22147266 22681889 23566155 28076346 |
Genomics
Comparative Map Data| Snw1 (Rattus norvegicus - Norway rat) |
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| SNW1 (Homo sapiens - human) |
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| Snw1 (Mus musculus - house mouse) |
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| Snw1 (Chinchilla lanigera - long-tailed chinchilla) |
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| SNW1 (Pan paniscus - bonobo/pygmy chimpanzee) |
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| SNW1 (Canis lupus familiaris - dog) |
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| Snw1 (Ictidomys tridecemlineatus - thirteen-lined ground squirrel) |
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| SNW1 (Sus scrofa - pig) |
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| SNW1 (Chlorocebus sabaeus - African green monkey) |
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| Snw1 (Heterocephalus glaber - naked mole-rat) |
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Position Markers| RH135332 |
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| RH138835 |
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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 | |||||||||||||
| Medium | 3 | 35 | 56 | 41 | 19 | 41 | 1 | 3 | 74 | 35 | 41 | 11 | 1 |
| Low | 8 | 1 | 7 | 8 | 7 | ||||||||
| Below cutoff |
View RNA-SEQ Expression Data
Sequence
Nucleotide Sequences| RefSeq Transcripts | NM_001109279 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
| GenBank Nucleotide | AABR07065139 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
| AAHX01045690 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| CH473982 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ215071 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
Reference Sequences
| RefSeq Acc Id: | ENSRNOT00000057807 ⟹ ENSRNOP00000054619 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | NM_001109279 ⟹ NP_001102749 | ||||||||||||||||||||
| RefSeq Status: | PROVISIONAL | ||||||||||||||||||||
| Type: | CODING | ||||||||||||||||||||
| Position: |
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| Sequence: |
TTCCCGGGCAAGAATAGCCCCGCGACGCTGTGGCCTGCGCAGGAAGAAGCGGAAGAAGATGGCGhide sequence |
Protein Sequences| Protein RefSeqs | NP_001102749 | (Get FASTA) | NCBI Sequence Viewer |
| GenBank Protein | EDL81657 | (Get FASTA) | NCBI Sequence Viewer |
Reference Sequences
| RefSeq Acc Id: | NP_001102749 ⟸ NM_001109279 |
| - UniProtKB: | D4A8G7 (UniProtKB/TrEMBL) |
| - Sequence: |
MALTSFLPAPTQLSQDQLEAEERARSQRSRQTSLVSSRREPPPYGYRKGWIPRLLEDFGDGGAFhide sequence |
| RefSeq Acc Id: | ENSRNOP00000054619 ⟸ ENSRNOT00000057807 |
Protein Domains
SKIP_SNW
TranscriptomePromoters| RGD ID: | 13694761 | ||||||||
| Promoter ID: | EPDNEW_R5286 | ||||||||
| Type: | initiation region | ||||||||
| Name: | Snw1_1 | ||||||||
| Description: | SNW domain containing 1 | ||||||||
| 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_5.0
| Chromosome | Start Pos | End Pos | Reference Nucleotide | Variant Nucleotide | Variant Type | Strain |
| 6 | 120785167 | 120785168 | C | T | snv | NIG-III/Hok (KyushuU) |
Assembly: RGSC_v3.4
| Chromosome | Start Pos | End Pos | Reference Nucleotide | Variant Nucleotide | Variant Type | Strain |
| 6 | 111701906 | 111701907 | C | T | snv | SS/JrHsdMcwi (MCW), FHL/EurMcwi (MCW) |
Additional Information
External Database Links| Database | Acc Id | Source(s) |
| AGR Gene | RGD:1561926 | AgrOrtholog |
| Ensembl Genes | ENSRNOG00000037998 | Ensembl, ENTREZGENE, UniProtKB/TrEMBL |
| Ensembl Protein | ENSRNOP00000054619 | ENTREZGENE, UniProtKB/TrEMBL |
| Ensembl Transcript | ENSRNOT00000057807 | ENTREZGENE, UniProtKB/TrEMBL |
| InterPro | SKI-int_prot_SKIP | UniProtKB/TrEMBL |
| SKI-int_prot_SKIP_SNW-dom | UniProtKB/TrEMBL | |
| KEGG Report | rno:500695 | UniProtKB/TrEMBL |
| NCBI Gene | 500695 | ENTREZGENE |
| PANTHER | SKIP_SNW | UniProtKB/TrEMBL |
| Pfam | SKIP_SNW | UniProtKB/TrEMBL |
| PhenoGen | Snw1 | PhenoGen |
| UniGene | Rn.220230 | ENTREZGENE |
| UniProt | D4A8G7 | ENTREZGENE, UniProtKB/TrEMBL |
Nomenclature History| Date | Current Symbol | Current Name | Previous Symbol | Previous Name | Description | Reference | Status |
|---|---|---|---|---|---|---|---|
| 2009-04-14 | Snw1 | SNW domain containing 1 | RGD1561926 | similar to Nuclear protein SkiP (Ski-interacting protein) | Nomenclature updated to reflect human and mouse nomenclature | 1299863 | APPROVED |
| 2008-04-30 | RGD1561926 | similar to Nuclear protein SkiP (Ski-interacting protein) | RGD1561926_predicted | similar to Nuclear protein SkiP (Ski-interacting protein) (predicted) | 'predicted' is removed | 2292626 | APPROVED |
| 2006-03-10 | RGD1561926_predicted | similar to Nuclear protein SkiP (Ski-interacting protein) (predicted) | similar to Nuclear protein SkiP (Ski-interacting protein) (SNW1 protein) (Nuclear receptor coactivator NCoA-62) (predicted) | Name updated | 1299863 | APPROVED | |
| 2006-03-07 | RGD1561926_predicted | similar to Nuclear protein SkiP (Ski-interacting protein) (SNW1 protein) (Nuclear receptor coactivator NCoA-62) (predicted) | LOC500695 | similar to Nuclear protein SkiP (Ski-interacting protein) (SNW1 protein) (Nuclear receptor coactivator NCoA-62) | Symbol and Name status set to approved | 1299863 | APPROVED |
| 2006-02-09 | LOC500695 | similar to Nuclear protein SkiP (Ski-interacting protein) (SNW1 protein) (Nuclear receptor coactivator NCoA-62) | Symbol and Name status set to provisional | 70820 | PROVISIONAL |
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| More on Snw1 | |
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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: | 1561926 |
| Created: | 2006-02-09 |
| Species: | Rattus norvegicus |
| Last Modified: | 2020-06-09 |
| Status: | ACTIVE |
