rs27287878 SNP Detail

Summary

• ID
  rs27287878
• Variation Type
  SNP
• Alleles
  G/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
  Chr2:168606011 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGCACCATGG CTAGGCTGTC
  CCTTACTAAT GAGTACATCC CCCTTGCTCT AGAACCAACA ACAAACACCC CATGGATTCA
  AGAAGGCTAA AGTCAAGTGG GAGGGGAACC ACTGGGCGAC CCTTGCCACC CGGGAGCCTT
  TATTCAAGGG AGCGAAATAC CAAAACTACT TCAGGTTGTG AGAATTAACG GTGAGGTCCT
  K
  CGAGGTCCCA GGCTGGAGCC TGCCACATAG CAGGTTCCAG TGAAAACTGT CATTCCGTGG
  ATGAAATTAC CTCAACATGC AAGGAGTCTA TAGAAAACTT TTTCACTGCC ACTGTACACA
  AGGACCCAAA AAGCTGGGTG AATAAGTGGG GGTACACTAG TCCACCTAGG CAAGGTTACA
  CCCAGAATGC AACGCCGAGC                                            
  
  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	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
ss37504011	NES08851485	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	G	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	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
rs27287878					SNP	T	T	T	T	T	T	T	T	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
ss37504011	NES08851485	PERLEGEN	MM_PANEL	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:168606011 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi12778	CpG island 12778			900 bp proximal
Rr374246	regulatory region 374246			within coordinates
Rr571082	regulatory region 571082			1290 bp distal
Rr571083	regulatory region 571083			within coordinates
Rr571084	regulatory region 571084			1030 bp proximal
Rr571085	regulatory region 571085			1268 bp proximal
Rr571086	regulatory region 571086			1552 bp proximal
Sall4	spalt like transcription factor 4			Intron
				Noncoding-Transcript-Variant
Tssr27872	transcription start site region 27872			713 bp downstream
Tssr27873	transcription start site region 27873			1154 bp downstream
Tssr27874	transcription start site region 27874			1213 bp downstream
Tssr27875	transcription start site region 27875			1244 bp downstream
Tssr27876	transcription start site region 27876			1279 bp downstream