rs219149489 SNP Detail

Summary

• ID
  rs219149489
• Variation Type
  SNP
• Alleles
  A/G

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

Genome Location and Flanking Sequence

• Location
  Chr13:53628262 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GAGACAGAGG CCTGAAATAA
  TTCTGCACCT CCCTTGCCCG CAAGCCAGCA GGAGCAGAAA GATCGCTGCA AACAACCCAT
  TTCAGGCTGC AGAAGCTTTT TCATAGATCC AAAAACCCAT CCGGACTGGT GGGGGAAAGA
  AGAGCCTGCT AAGCGCTGGT CCCAAACAGC AAATGCTCCC TAAATACTCC CTCCAGCACC
  R
  AAGGGGAGGA CCATTGCTCC AAGTTGCTTT CAATGACCAG AGCTTAGCAG GTACCCCAGT
  TTAGAAGACT TAGAAACTTG ACTGCCTAGA CCTCCAGATC CTTCCAGCTT ACCTCTCTGA
  AACAGGGACC TTTGCCTCAA ACATTTACCC AGAGTGAAAT CTCGCTGGTC TGAGGGAACC
  CATAGATGTA GAAATCTTAG                                            
  
  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	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss388642577	MGP_WTSI_13_53569595	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	A	A
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs219149489					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	A	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
ss388642577	MGP_WTSI_13_53569595	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:53628262 () rs orientation: forward

Symbol	Name	Function Class
Cpgi5623	CpG island 5623	1070 bp distal
Cpgi5624	CpG island 5624	1380 bp proximal
Gm33763	predicted gene, 33763	within coordinates
Msx2	msh homeobox 2	1446 bp upstream
Rr281405	regulatory region 281405	1061 bp distal
Rr281406	regulatory region 281406	938 bp proximal
Tssr122586	transcription start site region 122586	1501 bp upstream
Tssr122587	transcription start site region 122587	1439 bp upstream
Tssr122588	transcription start site region 122588	1416 bp upstream
Tssr122589	transcription start site region 122589	1376 bp upstream