rs6223560 SNP Detail

Summary

• ID
  rs6223560
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr9:24686733 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTCTAGAGGA CACACACACT
  CAAGCTATAC TTGTAAATAT TTGCTCTCCT TTCCAGCCAG TTGATCTGGC GATTAGGAAC
  CTCTTGGTAG GTCTTAAGGG GGTAGGGGAG GGGTGGGGTG AAGAACATAA AAAGAAAGAC
  ATACCCTGTC TCCCATTGCA TCCTCTTCAC AGCTCCCGAA ACATAGTTAT GGGCGAAATC
  R
  AGAGCCAGAA TAACTATGAA GAACATCCCG TGTAAACAGA ATGTTGGCAT CTGAGGAAGT
  TCTGATTTAG ACTGGCCTGG CCATCCTGTC TATGTTTGCT CGTTTCAGCA TTTGGGTTGT
  AATGTGTCAA TGTTGAGGGA AATTAGAAAT TAGTAAAACT GCAGACTTTT CATACTAGAA
  GGTTTTTTTT TTTTTTCCTT                                            
  
  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	C57BL/6J	CAST/EiJ	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss8629262	WI_WGS_9_24863558	WI	MOUSE	f	SNP							G		A
ss50654645	NES14025692	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G	G		G		G	G	G	A	G	G	A	G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs6223560					SNP	G	G	G	G	G	G	G	G	A	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
ss50654645	NES14025692	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr9:24686733 () rs orientation: forward

Symbol	Name	Function Class
Cpgi21501	CpG island 21501	693 bp distal
Cpgi21502	CpG island 21502	1887 bp proximal
Gm29824	predicted gene, 29824	287 bp upstream
Rr675417	regulatory region 675417	644 bp distal
Rr675418	regulatory region 675418	within coordinates
Rr675419	regulatory region 675419	345 bp proximal
Rr675420	regulatory region 675420	795 bp proximal
Rr675421	regulatory region 675421	1553 bp proximal
Tbx20	T-box 20	1153 bp upstream
Tssr88516	transcription start site region 88516	1146 bp upstream