rs47539660 SNP Detail

Summary

• ID
  rs47539660
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr13:88970838 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGGGGGCTAA GGGGTCTGTC
  AACCTGGACC CGATATTGAG AGTTCATACT GCCAATGAGA AAGAGAGAGG TCTACTAAGT
  CGCTAGCTTT CTCCCCAACC CTCCTCTTGG GCGCGTGACT TCAATTACAA CAGCTCAAAC
  AACTCTCTTC TCCTCCAACC CCAGGGGGCT TGAGCATTAT TTTGTACTCC CTCTGGGTAA
  R
  ACCTTAACTC TTGGTAATAG ATGGCTGTGA TGTGCAAACC AACCTTCATG CGTCCCTGGC
  CCAGGAGCCA AAAAGTTGTT CAGATTTGTC TACCTGTGCC TTTCATGGTT TGCATGTAAA
  TAGGAAACTA GCATACAAAA CAAAACCTAA AATTTTAAAA TCAGTGAGTC TCCGGGTGAG
  TTGTTTAGGT GACTTTCAGG                                            
  
  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	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
ss61911655	NES17093088	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G
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
rs47539660					SNP	G	G	G	G	G	G	G	G	G	G	G	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
ss61911655	NES17093088	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:88970838 () rs orientation: forward

Symbol	Name	Function Class
Cpgi5919	CpG island 5919	437 bp distal
Cpgi5920	CpG island 5920	919 bp proximal
Edil3	EGF-like repeats and discoidin I-like domains 3	within coordinates
Gm38504	predicted gene, 38504	1465 bp upstream
Rr483401	regulatory region 483401	1067 bp distal
Rr483402	regulatory region 483402	1439 bp distal
Tssr120562	transcription start site region 120562	1199 bp downstream
Tssr120563	transcription start site region 120563	1139 bp downstream
Tssr120564	transcription start site region 120564	1128 bp downstream
Tssr120565	transcription start site region 120565	1116 bp downstream
Tssr120566	transcription start site region 120566	1096 bp downstream
Tssr120567	transcription start site region 120567	1043 bp downstream
Tssr120568	transcription start site region 120568	1035 bp downstream
Tssr120569	transcription start site region 120569	1000 bp downstream
Tssr120570	transcription start site region 120570	980 bp downstream
Tssr120571	transcription start site region 120571	958 bp downstream
Tssr120572	transcription start site region 120572	805 bp downstream
Tssr120573	transcription start site region 120573	777 bp downstream
Tssr120574	transcription start site region 120574	743 bp downstream
Tssr120575	transcription start site region 120575	872 bp upstream
Tssr120576	transcription start site region 120576	1495 bp upstream
Tssr123374	transcription start site region 123374	924 bp upstream