rs238340632 SNP Detail

Summary

• ID
  rs238340632
• 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
  Chr6:52223340 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGCAAGAGAG CGCAACTCCT
  GACGCCTCCC CCCACTCCCC GGTGGGTGAG GGATACTCTC TGGGCTGGGG GTGGCCAGGT
  GAAAGCCCGG AATTGTATAG CTTCAGGTCC CGGAGTCTGT TATCCGAAGG CTTACGTTCA
  GCACCTTCTT CGCAGCCCCC CTCCCACAGG TTTGCTCTGG GAAGCCCCCC AGCCTCAGAC
  Y
  CTGGCTGGAC CCCATTTGGG GCCAGGCTTC GCCGGCACGG ATGTGCCGGC CTCGTGGCTT
  GTCCGATTTG CACGGTGACT TGATTACACG CTCTCATTCA CGGTCACTTC CGAAGCGCTT
  TAGTGCCTTC CGTCCCCAAA CCGCCAACAG GCAAAGCGGC TTCCCTCCGC GGTTTGTCAA
  TAATCCGCGC TGTCCGGAAG                                            
  
  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
ss368309171	MGP_WTSI_6_52196359	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C
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
rs238340632					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C

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
ss368309171	MGP_WTSI_6_52196359	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:52223340 () rs orientation: forward

Symbol	Name	Function Class
Cpgi17436	CpG island 17436	within coordinates
Gm56036	predicted gene, 56036	256 bp downstream
Gm56037	predicted gene, 56037	39 bp upstream
Gm56038	predicted gene, 56038	358 bp upstream
Gm56039	predicted gene, 56039	1061 bp upstream
Gm56040	predicted gene, 56040	1972 bp upstream
Hoxa11	homeobox A11	556 bp upstream
Hoxa11os	homeobox A11, opposite strand	within coordinates
Tssr1847	transcription start site region 1847	429 bp downstream
Tssr56517	transcription start site region 56517	1346 bp downstream
Tssr56518	transcription start site region 56518	1321 bp downstream
Tssr56519	transcription start site region 56519	373 bp downstream
Tssr56520	transcription start site region 56520	348 bp downstream
Tssr61029	transcription start site region 61029	597 bp upstream
Tssr61030	transcription start site region 61030	567 bp upstream
Tssr61031	transcription start site region 61031	534 bp upstream