rs28162239 SNP Detail

Summary

• ID
  rs28162239
• 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
  Chr4:107687757 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGTGTGGGTG GGATCCTTGG
  TTTGAGGATG TGTGTTGTTT GGGGAAGGAC GCCTCTGGGG GTGGGGCGTG GGAGTGATGA
  GTGAGCATGG TAATTTGCAG GAGCATACAG GGGCTGGGAG CTGCTGAAGG ACCAGTCAGC
  ACCATACCTC CATCGCCTGA GGAGGAATAC CACCCGGACG TGCGGGCAGA CAACCGTGCA
  Y
  ACCATACGCC CTTCAGTTGG GGCCAGGACT GTGACTTTAT ATTCAGTCAC GTCCCCTTTT
  GTTTCTCAGT TCACAAATCC TTAGCACCAT TCTTAGCCCA TTTGTTCCTC ATAGCAGCCC
  TGTGGGGGTT TATGAGGCCC AGAGAAGTAG TGCATCTTGA ATAAGGTCAC ACAGCCACAG
  GTGGCACCAG AGACCCTGTG                                            
  
  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	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss38283173	NES09528923	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	C	C	C		C	C	C	T		C
ss321251709	CHEV_4_107503165	CHEVERUD	SCREENING_POP	f	SNP										T					C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs28162239					SNP	C	C	C	C	C	C	C	C	C	T	C	C	C	T	C	C

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
ss38283173	NES09528923	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:107687757 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Lrp8	low density lipoprotein receptor-related protein 8, apolipoprotein e receptor			Intron
				Noncoding-Transcript-Variant
Lrp8os1	low density lipoprotein receptor-related protein 8, apolipoprotein e receptor, opposite strand 1			within coordinates
Rr597082	regulatory region 597082			280 bp proximal
Tssr38270	transcription start site region 38270			389 bp upstream
Tssr38271	transcription start site region 38271			398 bp upstream