rs258149375 SNP Detail

Summary

• ID
  rs258149375
• 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
  Chr11:96241546 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTGTTGTTTT TTGCCTCCTT
  CCTCTAGTAA ATCACAATAT TCTAAAATTG AGCCCATCAT AGGTGCCTCA CCATAGAATA
  CATTACATTT TTTTTTCTCT CTGGAGGCCC AAAGCAGAAT ATAATCTCAG TGGTGGTCAT
  TATCCCCAGC CCCCTCTCCC CCACCATCTT TAGGAAATGT TTTCTTACCA GGGATTTTAA
  W
  AGTAGCCCAA AGGCAAATAC AGAGGGGGAA ATCCCTTTGT CCAGAGGGCG ACTGTGCACT
  GACTTTAGCT TTGAAAGTTA AGTGGATGGC TACTTTGGTG CCCTGGATAG AGACACAGAT
  ACACCTGGGG GCCTGTGAAT ACATCTGTCA CCTTAGACCT TCTTAGACCC TCCTATTGCC
  AGGGTTGGGG TGTCACAGTG                                            
  
  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
ss384367020	MGP_WTSI_11_96212034	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A
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
rs258149375					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A

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
ss384367020	MGP_WTSI_11_96212034	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:96241546 () rs orientation: forward

Symbol	Name	Function Class
Cpgi3656	CpG island 3656	1292 bp proximal
Cpgi3657	CpG island 3657	1948 bp proximal
Hoxb2	homeobox B2	912 bp upstream
Hoxb3os	homeobox B3 and homeobox B2, opposite strand	within coordinates
Rr141	regulatory region 141	272 bp distal
Rr454	regulatory region 454	500 bp distal
Rr455383	regulatory region 455383	645 bp distal
Rr455384	regulatory region 455384	252 bp distal
Rr455385	regulatory region 455385	421 bp proximal
Tssr104519	transcription start site region 104519	876 bp upstream
Tssr104520	transcription start site region 104520	1149 bp upstream
Tssr104521	transcription start site region 104521	1178 bp upstream
Tssr104522	transcription start site region 104522	1230 bp upstream
Tssr104523	transcription start site region 104523	1254 bp upstream
Tssr104524	transcription start site region 104524	1334 bp upstream
Tssr104525	transcription start site region 104525	1400 bp upstream
Tssr110331	transcription start site region 110331	593 bp upstream
Tssr110332	transcription start site region 110332	521 bp upstream