rs3709496 SNP Detail

Summary

• ID
  rs3709496
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  107
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:107688555 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGCCTCTTCC TGTGGCAGGG
  CTGAGCTAGC TTGGTTACAC TGGAGGGACC CGACCGACGC TGAGCTTGTT CACTGAGCTC
  TTTTGCCTTT TGTCCTGTGG CAGTGCTACA CAGGAAAGTC ACATCCCTAC TGGCTCGGAG
  ACAGAAGGGA CTTGCCTTCA GTCACCTAGT CCAACGGGGG GACTTCAAAG GTGGTTTAGT
  R
  CAGTCTCTAG CCTGAAAGTG GTCATATCAC CTCTGTTTCC ACAGGGTGGT GTGTTCTCCA
  AGCATGGACT GTCATCATAG GCCAGGTCTC TGCAGCACAC TTCCGGGCAC ATGGCAAGGG
  TATAGCTTTG TGCAGGAGCC TCTGTGCTTG GTGGTTGGTT TGCTACGAGG TCCCTGAGAG
  TTGAGGGGCC TCTGTCACAG                                            
  
  R = A/G
  

  
  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	C57BL/6J	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss5085742	WI_WGS_4_105565927	WI	MOUSE	f	SNP			A			G
ss38283170	NES09528737	PERLEGEN	MM_PANEL2	f	SNP	G	A	A	G	A		G	G	G		G	A	G	G		G
ss321251711	CHEV_4_107503963	CHEVERUD	SCREENING_POP	f	SNP										G					A
SNP Consensus Information
SNP					Consensus Type	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs3709496					SNP	G	A	A	G	A	G	G	G	G	G	G	A	G	G	A	G

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
ss38283170	NES09528737	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:107688555 () 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			454 bp upstream
Rr597082	regulatory region 597082			2 bp distal
Tssr38270	transcription start site region 38270			401 bp downstream
Tssr38271	transcription start site region 38271			391 bp downstream