rs257358420 SNP Detail

Summary

• ID
  rs257358420
• Variation Type
  SNP
• Alleles
  C/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
  Chr6:52183221 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCACAGAGCG CAGAGGCGCT
  AACACAGCAG CAGGGCCAAT TCTGGGTGCA TCGCGGGCCT CGCAAGCTGG CTTGGGCAGC
  CTTGGGGAGA AAACCTGTGT GTTTGTGTGT ACAGTGCGTC TGTCCCACAG CTGACGTTGG
  GTGTGTGGGG TTTTGTTTGT TTGTTTTCTG TAATAAGTAA ATGCGTAGCC GCTTGCAAAG
  S
  TTTGGACGCT TTTCCCTAAG CTGCGGGAGA AGCAGGCTGG AATAAAACTT GGGGAGCAGA
  CAAGGGCACC AGGGGGCAAA GCCAATAGAG GTTACAACGC TGGCCTGGTC CCTGCACTGG
  AGTCTACTCG CCCGCTTTGG CCTCAGAGTC TTCCCCGCTG GCCTGCGTGG AGTTGATGAG
  TTTATTTTCC TTTTTCCACT                                            
  
  S = C/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
ss368308694	MGP_WTSI_6_52156240	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	C	G	G	G	G	C	G	G	G	G	G	C	G	G	G	G	G	G	C	G	G	G	G	G	G	G	C	G	G	G	G
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
rs257358420					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	C	G	G	G	G	C	G	G	G	G	G	C	G	G	G	G	G	G	C	G	G	G	G	G	G	G	C	G	G	G	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
ss368308694	MGP_WTSI_6_52156240	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:52183221 () rs orientation: forward

Symbol	Name	Function Class
Cpgi17423	CpG island 17423	1369 bp distal
Cpgi17424	CpG island 17424	within coordinates
Cpgi17425	CpG island 17425	1932 bp proximal
Gm28308	predicted gene 28308	within coordinates
Hoxa3	homeobox A3	within coordinates
Hoxa5	homeobox A5	1784 bp upstream
Hoxa6	homeobox A6	47 bp downstream
Hoxaas3	Hoxa cluster antisense RNA 3	within coordinates
Tssr60991	transcription start site region 60991	1991 bp upstream
Tssr60992	transcription start site region 60992	1979 bp upstream
Tssr60993	transcription start site region 60993	1903 bp upstream
Tssr60994	transcription start site region 60994	1833 bp upstream
Tssr60995	transcription start site region 60995	1778 bp upstream