rs249409131 SNP Detail

Summary

• ID
  rs249409131
• 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
  Chr2:153004961 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCTTGTTTAT AACCCCAGAA
  ATCAGGTAAA AATGTTCAAG GTTTTGCGGA TTGTAACCCC TTTTGTGGAG CACTTGCTTG
  AGCGTACCCA GGAGCCTAAG TTCGATATTT GGCTCTGTTT AGGGGAAAAG CAGATTCAAA
  GCTTTCCCTG GTTTCTGTGG CCACAGACTT CAGTATGAAT CATGAAGAGG GGTAAATCCC
  W
  AAAGTGGGAT GTTGAAATCC TTTTTCTCCT TTATCACATT CAGAATAAGG CGAATGTGAA
  GCCAGGAAGT CACACCCTTT CTTGTTCATA GAGAGTTTAG TAAGGTGGCA TTTATAGCAC
  TGCACAGGGA AATTCCTGCC CTGTACAGAG CTTTTAAGAG TTTATAAGTT AGCAATATGT
  ATTTCTGGTG TACGTTTCTT                                            
  
  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	ZALENDE/EiJ
ss356166738	MGP_WTSI_2_152988777	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	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	T	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	ZALENDE/EiJ
rs249409131					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	T	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
ss356166738	MGP_WTSI_2_152988777	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:153004961 () rs orientation: forward

Symbol	Name	Function Class
Cpgi12480	CpG island 12480	975 bp distal
Gm75427	predicted gene, 75427	916 bp upstream
Gm75432	predicted gene, 75432	1532 bp upstream
Rr39415	regulatory region 39415	840 bp proximal
Rr55859	regulatory region 55859	360 bp distal
Rr397404	regulatory region 397404	1600 bp downstream
Tm9sf4	transmembrane 9 superfamily member 4	within coordinates
Tssr20873	transcription start site region 20873	1734 bp downstream
Tssr20874	transcription start site region 20874	1702 bp downstream
Tssr20875	transcription start site region 20875	1488 bp downstream
Tssr20876	transcription start site region 20876	1085 bp downstream
Tssr20877	transcription start site region 20877	1065 bp downstream
Tssr26883	transcription start site region 26883	1570 bp upstream