rs27424546 SNP Detail

Summary

• ID
  rs27424546
• Variation Type
  SNP
• Alleles
  A/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
  Chr2:119726961 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGCTTCATTG TCTTGAAGAA
  GCAACAACAA CAACAAAAAT ATACATTGTT GGTTAATGTT TTCTTTACAT TTTTAAGCTT
  CATTGTCTTG AAGAAGCAAC AACAACAACA AAAATATTCT TGACCATTTC TTTTTAAGAC
  ATCTTTCATC TTGGTATCAG GCAATTTAGT GGCAGCTCTT TTTCCTTTAT AGAACCTTTC
  W
  TTGCTTTGCT TTTCATTCCA GCACGGTGTC TTGGCAGCCT AGCCTACTCT GGAACGTGAA
  CTCACTATAG AATTCAGGTT AGCCTCGAAC TCGCAGCAAT CCTGCTTCAG CCTCAGTGTT
  GAGAATATAG GCATAAACTT CCATTCTCTG CGCTCAACAA GGCTTTCTCG AATTTTCCTA
  GTGTTCTTTG TTGGCGAATA                                            
  
  W = A/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	129X1/SvJ	A/J	AKR/J	BTBR T<+> Itpr3/J	FVB/NJ	KK/HlJ	MOLF/EiJ	PWD/PhJ	WSB/EiJ
ss37649567	NES09023788	PERLEGEN	MM_PANEL2	f	SNP	A		T	T	A	T	A	T	T	A
ss147345347	ENSMUSSNP2330915	ENSEMBL	ENSEMBL_Sanger	f	SNP		A	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BTBR T<+> Itpr3/J	FVB/NJ	KK/HlJ	MOLF/EiJ	PWD/PhJ	WSB/EiJ
rs27424546					SNP	A	A	T	T	A	T	A	T	T	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
ss37649567	NES09023788	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:119726961 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
4930485G23Rik	RIKEN cDNA 4930485G23 gene			within coordinates
Cpgi12132	CpG island 12132			408 bp proximal
Cpgi12133	CpG island 12133			1604 bp proximal
Gm75581	predicted gene, 75581			within coordinates
Gm75585	predicted gene, 75585			within coordinates
Mga	MAX gene associated			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Rr563600	regulatory region 563600			55 bp proximal
Rr563601	regulatory region 563601			667 bp proximal
Rr563602	regulatory region 563602			759 bp proximal
Tssr19669	transcription start site region 19669			732 bp upstream
Tssr19670	transcription start site region 19670			1067 bp upstream
Tssr25831	transcription start site region 25831			640 bp downstream
Tssr25832	transcription start site region 25832			1859 bp downstream