rs220139090 SNP Detail

Summary

• ID
  rs220139090
• 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
  Chr1:57814120 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCAAGCCCGA GCGAGGGGCG
  CCGGCGGGGT GTGTGCTCCT GGTGAGTGAC ACGGAGGGGC GGGCGGCCGC CGGGAGGGGG
  CGGCTGCGCG GGCGGGAGTG TCCCTGCGTG GGGCTGGCGG CGCGGAGTTG AGGCAGTGAA
  GGAATCCAGC CTGCCCAGCG GCCCAGCGGC CCTACCGCCG CTTTCCCTCA GCTCGCTCTC
  S
  GCGCTGCAGG GGCCGCCAGC GCCGCGCCCC GGCCCGGGAC AGAGCAGCCG CGCTCGCAAC
  GAGGTAAGCC CGGGTCCCCG GGTCGGGCGG CTCACCAGGG CCTGCGTGGC CAGGGTGGGG
  GCGATCGACC AGCCGAGCGC CCGAAGGCCG CCTCCCGGGG CACTGGGTGT GGCCCGAGCT
  TGGCCGACCG GACGCGGAGG                                            
  
  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	129S1/SvImJ	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	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
ss349751443	MGP_WTSI_1_57831805	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	G	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	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	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
rs220139090					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	G	C	C	C	C

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
ss349751443	MGP_WTSI_1_57831805	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:57814120 () rs orientation: forward

Symbol	Name	Function Class
Cpgi274	CpG island 274	within coordinates
Rr411358	regulatory region 411358	90 bp distal
Rr411359	regulatory region 411359	400 bp distal
Rr411360	regulatory region 411360	114 bp distal
Rr411361	regulatory region 411361	within coordinates
Rr411362	regulatory region 411362	280 bp proximal
Rr411363	regulatory region 411363	420 bp proximal
Rr411364	regulatory region 411364	1791 bp proximal
Spats2l	spermatogenesis associated, serine-rich 2-like	within coordinates
Tssr6747	transcription start site region 6747	199 bp downstream
Tssr6748	transcription start site region 6748	29 bp downstream
Tssr6749	transcription start site region 6749	6 bp downstream