rs257277439 SNP Detail

Summary

• ID
  rs257277439
• Variation Type
  SNP
• Alleles
  A/T

• 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
  Chr1:36345475 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCAAATGGAG GTATCATTCC
  TCAGCAGGGT TTATTGGCTG TTGTAAATTA CTTTCTGTTG CAAAGAGTTG CCTCAGGAGA
  CAATTAAATT TAGATCTTAT TGTTCGCAGG TTGCCCGAGA CAGGTGTTGA CTTGCTGAGG
  CTTTGCACAA ACAGCACTGC CTGAGAGTGA GCTCTCCTGC CTGGACGGTA GGATCCTCCT
  W
  TTCAGAGGTC GGATTAGCTG TGGCTTTGAA AGGTAGTGAG TGCCTCATTG ATAGATGTAT
  CCAATCCAGG AGGTAGTGGA TGGTCTATAC TGCAACACTG AAGGCAGCGT GCAGATCTCC
  ATACCTAACC TGGCACTGTA GCTAACCCAA CCAATCGACC CTTACCAAAT GAACACAGTG
  ACTAGAAGCC TGTGAAGTTT                                            
  
  W = A/T
  

  
  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
ss349247541	MGP_WTSI_1_36363239	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	A	T	T	T	T	A	T	T	T	T	T	A	T	T	T	T	T	T	A	T	A	T	T	T	T	T	A	T	A	T
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
rs257277439					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	A	T	T	T	T	A	T	T	T	T	T	A	T	T	T	T	T	T	A	T	A	T	T	T	T	T	A	T	A	T

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
ss349247541	MGP_WTSI_1_36363239	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:36345475 () rs orientation: forward

Symbol	Name	Function Class
Arid5a	AT-rich interaction domain 5A	1339 bp upstream
Cpgi139	CpG island 139	1177 bp proximal
Gm70585	predicted gene, 70585	within coordinates
Rr366864	regulatory region 366864	1516 bp upstream
Rr395991	regulatory region 395991	1138 bp upstream
Rr409282	regulatory region 409282	1046 bp distal
Rr409283	regulatory region 409283	593 bp proximal
Rr409284	regulatory region 409284	1220 bp proximal
Rr409285	regulatory region 409285	1386 bp proximal
Tssr6253	transcription start site region 6253	1333 bp upstream
Tssr6254	transcription start site region 6254	1351 bp upstream
Tssr6255	transcription start site region 6255	1380 bp upstream
Tssr6256	transcription start site region 6256	1665 bp upstream
Tssr6257	transcription start site region 6257	1743 bp upstream
Tssr6258	transcription start site region 6258	1873 bp upstream