rs253758873 SNP Detail

Summary

• ID
  rs253758873
• Variation Type
  SNP
• Alleles
  G/T

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

Genome Location and Flanking Sequence

• Location
  Chr3:90420230 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTTTGGCTAC ATCTCCATCT
  TTTTGTGCTT GGGATTTATT TATTTATAGC AGGGTCACAC TCTGTAGCCT GTGCTGTCCT
  GGAATTAGCT CAAGCAGATC CTTAGCTTCT GGGCAGTCGT GTCTCTGTGT GCTGAGATTA
  CTGGTCTGAG TTCCCCCTCT CTCTTCAGCA TGCCATTTTG GCTTCTTTGG GGGACGGGGG
  K
  GGGGGGGGCG GTATGGCGGT ATTCTTAACA TGACTGCCTG TTCTAGTCCT TTTCTCTGCA
  AAATCATCCC TTTCCATCAG GTAGGTAGAA GGAAGGGAGA AGAGATGTCT GAGGCTTTTC
  CTTGGAGACG AGCTTTGTAG GTGTTCTTCC TGATGCTGTC CATTGCTGCC ACGGGCCAGC
  GTTGGTTCGG TAGCTCCAGT                                            
  
  K = G/T
  

  
  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	129S1/SvImJ	A/J	AKR/J	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	FVB/NJ	LP/J	NOD/ShiLtJ	NZW/LacJ	RF/J	ST/bJ
ss358833677	MGP_WTSI_3_90316845	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	G	T	T	T	T	T	G	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	FVB/NJ	LP/J	NOD/ShiLtJ	NZW/LacJ	RF/J	ST/bJ
rs253758873					SNP	T	T	T	T	T	T	T	T	T	T	T	T	G	T	T	T	T	T	G	T

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
ss358833677	MGP_WTSI_3_90316845	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:90420230 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13466	CpG island 13466	1261 bp proximal
Gm56783	predicted gene, 56783	1221 bp downstream
Rr375350	regulatory region 375350	within coordinates
Rr580384	regulatory region 580384	139 bp proximal
Rr580385	regulatory region 580385	1038 bp proximal
Rr580386	regulatory region 580386	1155 bp proximal
Rr580387	regulatory region 580387	1345 bp proximal
Rr580388	regulatory region 580388	1455 bp proximal
Rr580389	regulatory region 580389	1459 bp proximal
Rr580390	regulatory region 580390	1523 bp proximal
S100a1	S100 calcium binding protein A1	Intron
S100a13	S100 calcium binding protein A13	1429 bp upstream
Tssr30209	transcription start site region 30209	1995 bp upstream
Tssr34240	transcription start site region 34240	1749 bp upstream
Tssr34241	transcription start site region 34241	857 bp upstream
Tssr34242	transcription start site region 34242	1327 bp downstream
Tssr34243	transcription start site region 34243	1433 bp downstream
Tssr34244	transcription start site region 34244	1447 bp downstream
Tssr34245	transcription start site region 34245	1482 bp downstream