rs220260538 SNP Detail

Summary

• ID
  rs220260538
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  137
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr13:77281704 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTACACCTAA TTTAACCTAG
  ATAAGGAAAT AAATACTGAG TCAATCCCTA GTACCAAGGG CAGAGAAAAA AAAAAAAAAA
  AACCTACCTT GAGGATTTAA ATCTTTGGAT AGACAGTGAA ACCAAGATTT AAGTCTGTTA
  CTGTGGAAAG GCTATGCCTT TTCTACAATG CCAATCTGGC TTAAATTTTA GACTTAATCT
  R
  CCTCTCTTAA ACAATCTTAT GAGGCAATTT TACAAAGCAA TCTAATTTCT ATCAGTATAG
  CAGGAAGGTA ATACTACATG AAAAAAGAAT CTACTACGTG GGATAGGAGA CATTTAGAAC
  AACAAAATGA AGAAATTAAA CAATTATTAA TCATTTTCAA AAACATAATT CCAATATCTA
  AAATATTCAC ATATTTCCTG                                            
  
  R = A/G
  

  
  Note: Sequence in lower case indicates low-complexity or repetitive sequence

  ---

SNP Assays
and
SNP Consensus

Strain alleles of submitted assays, and consensus values for this SNP

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	B10.RIII-H2 H2-T18/(71NS)SnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CZECHII/EiJ	I/LnJ	JF1/MsJ	LEWES/EiJ	MOLF/EiJ	NON/ShiLtJ	PWK/PhJ	SPRET/EiJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss389135958	MGP_WTSI_13_77272846	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	A
SNP Consensus Information
SNP					Consensus Type	B10.RIII-H2 H2-T18/(71NS)SnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CZECHII/EiJ	I/LnJ	JF1/MsJ	LEWES/EiJ	MOLF/EiJ	NON/ShiLtJ	PWK/PhJ	SPRET/EiJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs220260538					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	A

Additional submitted assays for this SNP, where the strain of origin for observed alleles is not specified by the submitter

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	Alleles
ss389135958	MGP_WTSI_13_77272846	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:77281704 () rs orientation: forward

Symbol	Name	Function Class
2210408I21Rik	RIKEN cDNA 2210408I21 gene	1955 bp upstream
Cpgi5881	CpG island 5881	1404 bp proximal
Rr281682	regulatory region 281682	696 bp proximal
Rr284991	regulatory region 284991	1104 bp distal
Slf1	SMC5-SMC6 complex localization factor 1	within coordinates
Tssr120442	transcription start site region 120442	1479 bp upstream
Tssr120443	transcription start site region 120443	1928 bp upstream
Tssr123276	transcription start site region 123276	1831 bp downstream
Tssr123277	transcription start site region 123277	1912 bp downstream