rs249378889 SNP Detail

Summary

• ID
  rs249378889
• 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
  Chr1:87053453 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATGACTGATG GGGATCCAGG
  GCAAGGGAGG CAGAGAGGCT CGGGTGAAGA AATAAATGTC TGCTTTGAGC CCAGTTGGGG
  GTGTCTCTGT CCCCAGACAT ACAGTGTGGA CAGACAGGTT CCAGACAGTG CAAGCACGGC
  CACCGCCTAC CTGTGTGGGG TCAAGACCAA CTACAAGACC ATCGGCGTGA GCGCAGCCGC
  R
  AGATTCGACC AGTGCAACAC CACATTTGGC AATGAGGTCT TCTCAGTGAT GTACCGTGCC
  AAGAAAGCAG GTGAGTTGGA GCCAGGCTCA GCTATGGGGG GCAAGCCTAG GGGACTGGAT
  GTCTCACCCT GACCTTTGCC GTCTTCAGGA AAATCCGTAG GTGTGGTGAC CACCACCAGA
  GTGCAGCACG CCTCTCCCTC                                            
  
  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
ss350380294	MGP_WTSI_1_89022306	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	A	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	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
rs249378889					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	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
ss350380294	MGP_WTSI_1_89022306	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:87053453 () rs orientation: forward

Symbol	Name	Function Class
Akp3	alkaline phosphatase 3, intestine, not Mn requiring	within coordinates
Cpgi518	CpG island 518	1379 bp proximal
Rr17963	regulatory region 17963	1148 bp proximal
Tssr145	transcription start site region 145	613 bp upstream
Tssr146	transcription start site region 146	1857 bp upstream
Tssr7781	transcription start site region 7781	771 bp downstream
Tssr7782	transcription start site region 7782	328 bp downstream
Tssr7783	transcription start site region 7783	35 bp downstream
Tssr7784	transcription start site region 7784	200 bp upstream
Tssr7785	transcription start site region 7785	236 bp upstream
Tssr7786	transcription start site region 7786	266 bp upstream
Tssr7787	transcription start site region 7787	592 bp upstream
Tssr7788	transcription start site region 7788	994 bp upstream
Tssr7789	transcription start site region 7789	1024 bp upstream
Tssr7790	transcription start site region 7790	1078 bp upstream
Tssr7791	transcription start site region 7791	1202 bp upstream
Tssr7792	transcription start site region 7792	1230 bp upstream
Tssr7793	transcription start site region 7793	1243 bp upstream
Tssr7794	transcription start site region 7794	1260 bp upstream
Tssr7795	transcription start site region 7795	1286 bp upstream
Tssr7796	transcription start site region 7796	1309 bp upstream
Tssr7797	transcription start site region 7797	1326 bp upstream
Tssr7798	transcription start site region 7798	1363 bp upstream
Tssr7799	transcription start site region 7799	1599 bp upstream
Tssr7800	transcription start site region 7800	1618 bp upstream
Tssr7801	transcription start site region 7801	1677 bp upstream
Tssr7802	transcription start site region 7802	1804 bp upstream
Tssr7803	transcription start site region 7803	1865 bp upstream
Tssr7804	transcription start site region 7804	1889 bp upstream
Tssr7805	transcription start site region 7805	1963 bp upstream
Tssr7806	transcription start site region 7806	1977 bp upstream
Tssr7807	transcription start site region 7807	1997 bp upstream
Tssr12838	transcription start site region 12838	1 bp upstream
Tssr12839	transcription start site region 12839	2 bp downstream
Tssr12840	transcription start site region 12840	15 bp downstream
Tssr12841	transcription start site region 12841	1067 bp downstream
Tssr12842	transcription start site region 12842	1393 bp downstream
Tssr12843	transcription start site region 12843	1655 bp downstream
Tssr12844	transcription start site region 12844	1846 bp downstream