rs253001017 SNP Detail

Summary

• ID
  rs253001017
• 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
  Chr11:96197331 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACGTGGCCTT CAGCTGGACC
  CCATCCTGAT ACTCAGCGGG TATGGAAAGC CTTTGGAAAA TGCTCCAGGA AGAGTAATTT
  GGGCCTAAAT TCTGAGCAAG AAGGCCTCTG GTCCTTTGAG TCTGGTAAAG GCCTGCCCAG
  ATGCCCTGTC TCCTGTTCCA AAAGCTCAAA TGTTCAGCTC TGCCACCCAC TAAGGGGGAG
  R
  AAATCTGCTT AGCTTCAAAG GTTTTTTTTT TTTTTGGTCA CACTTGGCCT TCTCTATACT
  TTTCAAGGGG TTCTCCTATC CAGGGGTCCC GACTGACCTT CCCCTCTTGG TTAGGGTTTC
  TTCTGAAAGA CCCCTGGCTC CCCCTCCAGC CTGGTCCAAA ACCAGGGCCC AGTTTTCCTC
  CATCCAGTTG AGCTTCCACC                                            
  
  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
ss384366493	MGP_WTSI_11_96167819	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	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	A	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
rs253001017					SNP	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	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	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
ss384366493	MGP_WTSI_11_96167819	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:96197331 () rs orientation: forward

Symbol	Name	Function Class
Cpgi3644	CpG island 3644	1259 bp distal
Gm74526	predicted gene, 74526	578 bp upstream
Hoxb5	homeobox B5	384 bp downstream
Hoxb5os	homeobox B5 and homeobox B6, opposite strand	within coordinates
Rr455365	regulatory region 455365	1655 bp distal
Rr455366	regulatory region 455366	393 bp proximal
Rr455367	regulatory region 455367	589 bp proximal
Tssr104501	transcription start site region 104501	34 bp upstream
Tssr104502	transcription start site region 104502	547 bp upstream
Tssr104503	transcription start site region 104503	564 bp upstream
Tssr104504	transcription start site region 104504	612 bp upstream
Tssr104505	transcription start site region 104505	626 bp upstream
Tssr110327	transcription start site region 110327	396 bp downstream