rs225642178 SNP Detail

Summary

• ID
  rs225642178
• Variation Type
  SNP
• Alleles
  C/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
  Chr11:96189406 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGGGTTGAAG TCGGGATACA
  ATAAAACCTA AACTTAAAAG GGGGAAACAG GCCTGATAAA CAATAAACGA TTTTCCAAAC
  CTTCAAAGGA GGGTGTTTCT TCTTTTCTTG TTTCTAAAAT GAAGCAAATA AGCGGACAAG
  TCCGTTCTCG TTCCACCCCC CACCACCACC ACACCAGTAC AAAACCCTAG AAACAGACCT
  Y
  CCCCCTTTAT TCTCTCTCAA CGAGATTCGA GGATATTTAC CCAGCCCTCC CTTGAGGGAA
  CGGGCCCATG CAACGCAGGG GTTAACTTTT CTGAAAACAC AATTAACTTT TCCCTATTCC
  TGCGTGGGGT GGGGTGGGGG GGGAGGTTGT ATTTATTTCA TCACTGGGGA ATGGGATGAT
  CTTCATCTAA CTGCTTCCTC                                            
  
  Y = C/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
ss384366429	MGP_WTSI_11_96159894	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	C	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
rs225642178					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	C	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
ss384366429	MGP_WTSI_11_96159894	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:96189406 () rs orientation: forward

Symbol	Name	Function Class
Cpgi3641	CpG island 3641	345 bp proximal
Cpgi3642	CpG island 3642	1967 bp proximal
Hoxb5os	homeobox B5 and homeobox B6, opposite strand	within coordinates
Hoxb6	homeobox B6	within coordinates
Rr455361	regulatory region 455361	101 bp proximal
Rr455362	regulatory region 455362	1924 bp proximal
Tssr3658	transcription start site region 3658	673 bp upstream
Tssr104480	transcription start site region 104480	174 bp upstream
Tssr104481	transcription start site region 104481	204 bp upstream
Tssr104482	transcription start site region 104482	225 bp upstream
Tssr104483	transcription start site region 104483	466 bp upstream
Tssr104484	transcription start site region 104484	509 bp upstream
Tssr104485	transcription start site region 104485	532 bp upstream
Tssr104486	transcription start site region 104486	557 bp upstream
Tssr104487	transcription start site region 104487	627 bp upstream
Tssr104488	transcription start site region 104488	643 bp upstream