rs27642189 SNP Detail

Summary

• ID
  rs27642189
• Variation Type
  SNP
• Alleles
  A/C

• 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
  Chr2:180829028 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAAAAAGCAG CAGAGCTGGT
  TTCGACTGGA GCGAAACCAC AGATGTTTGA TCAAGGAGGT TAGGGCCAAT GTGGAACTTT
  GCAGAACCTA GCATTGCAGA AGGTAGGGTG GATTCTTGCT CCGCTCGGGG TGGAGTCTAA
  TAGGGAAGGG CGGGACCACT TCGTGCTACT TCTGGTCTAT CAGGGGAGCT CAAAAGTCTC
  M
  TGGGTGGGCC CGCTGTGAAG CGGGAGGGGC TTTGACGCGC GCCCCGCCTC CCAGTGGTGC
  GTCTTTTGCG GTGCAGGAAA GCTACTAAGT ACGCGCGTGC GCATAGCGCG CGTGGGTCCT
  AAAGTGGTGT TTCGTGGGTT ATCTTTGCAA ATGGGCTCCG CGGCCTAGCG CCCTGGTGGC
  CTAAAAACGA AGCCTGCAAG                                            
  
  M = A/C
  

  
  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
ss37832408	NES08676472	PERLEGEN	MM_PANEL2	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	C	A
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
rs27642189					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	C	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
ss37832408	NES08676472	PERLEGEN	MM_PANEL	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:180829028 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
C330003G01Rik	RIKEN cDNA C330003G01 gene			within coordinates
Cpgi12916	CpG island 12916			within coordinates
Gm75115	predicted gene, 75115			within coordinates
Gm75119	predicted gene, 75119			1899 bp upstream
Ppdpf	pancreatic progenitor cell differentiation and proliferation factor			Intron
				Noncoding-Transcript-Variant
Rr374383	regulatory region 374383			within coordinates
Rr572939	regulatory region 572939			within coordinates
Rr572940	regulatory region 572940			41 bp proximal
Rr572941	regulatory region 572941			112 bp proximal
Rr572942	regulatory region 572942			468 bp proximal
Rr572943	regulatory region 572943			1409 bp proximal
Rr572944	regulatory region 572944			1910 bp proximal
Tssr22287	transcription start site region 22287			40 bp upstream
Tssr22288	transcription start site region 22288			140 bp upstream
Tssr22289	transcription start site region 22289			274 bp upstream
Tssr22290	transcription start site region 22290			362 bp upstream
Tssr22291	transcription start site region 22291			401 bp upstream
Tssr22292	transcription start site region 22292			544 bp upstream
Tssr22293	transcription start site region 22293			642 bp upstream