rs28259518 SNP Detail

Summary

• ID
  rs28259518
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr11:117705812 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CAGCTTCCCC AGTGGGGTCT
  CATTCTTCAT GCTGCCTTCC ACTGCATCCT AAAATAGCTA CCACGTCAGC TTGTAAAATG
  GATTGTTCTG GATAGCTTGC CAGGGTTCTG CTGCCTGCCA GGGCCCCTGG GTGCTGCCCC
  TCTGAGGTTG ACTCTGGCCC CTCTTGACAC CTTCCAGGGA CCTGGCAGGC AGTGGACCCA
  Y
  CTCTCAGGAA GCAGCATAAC CCTGAGGTAA CTCTTGTGCA ATGACAAGGC TGTCGATGGT
  GGCCGGCGGT GTCTTTCAAA ATCTGAAGCA TAAGCTAACA GCCCGGCTCT GAACTGTGGG
  CCTCCTCTGC AGAACATGCA TTAAGCAGTT AATGAGTTAG ATGGCAGGCA AGCTGGGCAC
  AGCACCAGCG GCACACTGGC                                            
  
  Y = C/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	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss37243942	NES08505519	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	C	T
SNP Consensus Information
SNP					Consensus Type	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs28259518					SNP	T	T	T	T	T	T	T	T	T	T	T	T	C	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
ss37243942	NES08505519	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:117705812 () rs orientation: forward

Symbol	Name	Function Class
Gm20708	predicted gene 20708	Intron
Rr460821	regulatory region 460821	639 bp distal
Rr460822	regulatory region 460822	within coordinates
Syngr2	synaptogyrin 2	703 bp downstream
Tk1	thymidine kinase 1	540 bp downstream
Tssr106080	transcription start site region 106080	1683 bp downstream
Tssr106081	transcription start site region 106081	1565 bp downstream
Tssr106082	transcription start site region 106082	1522 bp downstream
Tssr106083	transcription start site region 106083	1307 bp downstream
Tssr106084	transcription start site region 106084	1250 bp downstream
Tssr106085	transcription start site region 106085	1220 bp downstream
Tssr106086	transcription start site region 106086	1151 bp downstream
Tssr112040	transcription start site region 112040	1549 bp upstream
Tssr112041	transcription start site region 112041	1520 bp upstream
Tssr112042	transcription start site region 112042	1491 bp upstream
Tssr112043	transcription start site region 112043	1216 bp upstream