rs249440296 SNP Detail

Summary

• ID
  rs249440296
• 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
  Chr1:40123218 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGGGGGGCAG GGGATGAGAT
  TTGCATTTGT TCTTATTCCT ACATCATTCT GGAGGTCGGA GGTCTGCATG GGCCTCAGTG
  GGCTAGAATG AATTGTAGTC CATACAGGGT CCCTGGAGCC ACAAGGGCAG CATCCATGTC
  TTGGGTTTTT GTCCAGCCTC TGGCTCTCTG GCTCATGGAC TGCAGCACTA CACACACCAT
  Y
  CTCTTCCTCC TTTGGCTGTC TTACCACTTT TTCCTGAAGC ACCAAACCCG AGCCTGTCTC
  CGGACCTGGA AATCCTTAAC TTACATTAGC AGTCACTTTC TCTACATTAA GCAGCATGTT
  CCCAGCTTCC AAAGACTCAG ACAAAAAGTT AAAAACAAAA CCAACCAAAC AAACAAACAA
  ACAAAAAGCC AAACAAAGGC                                            
  
  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
ss349341392	MGP_WTSI_1_40140903	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
rs249440296					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
ss349341392	MGP_WTSI_1_40140903	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:40123218 () rs orientation: forward

Symbol	Name	Function Class
Cpgi194	CpG island 194	1703 bp proximal
Gm16894	predicted gene, 16894	within coordinates
Il1r2	interleukin 1 receptor, type II	654 bp upstream
Rr29353	regulatory region 29353	1182 bp proximal
Rr396010	regulatory region 396010	1678 bp upstream
Tssr62	transcription start site region 62	652 bp upstream
Tssr6411	transcription start site region 6411	675 bp upstream
Tssr6412	transcription start site region 6412	706 bp upstream
Tssr6413	transcription start site region 6413	717 bp upstream
Tssr6414	transcription start site region 6414	1140 bp upstream
Tssr11414	transcription start site region 11414	1765 bp downstream