rs223450249 SNP Detail

Summary

• ID
  rs223450249
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:107225243 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCCAGAGGAC GCTTCCTCGA
  GTCACAGCCC ACCTGGAGGC ATGTGGCTAC GGGGAAGTTC TGGCCGGTTG AGTCTGTTCA
  GGCGAAGCTG CGGAGAGATG GTCTGGCGGC TTTGCAGAAC CCTGCCCAGG CAGCGTACCG
  GGCAGCCCCA GCTGGGTCCT CCCGGGGCCT TCCTGCCTTT GAACAGTGGT GGCGGGCGGA
  Y
  ACTCTGTCCC CGGCACGCTT GAGAGCGGGG GCCGCCATCT CCATGGCCAC GGCTGCGAGC
  GGGCCCTGCG CCGGCGGGTC GCCGCGGGAC ATCCTTTGGC GCGTGAGTTA GCGAGCCGTG
  GCGCTCCCTG CCTCTCTGGC GGTGCCTGCG CGCTTGGCTA AAGGGGCCTG TCTTGGAGGC
  GCTTTAGGAA TAGCGTGTAG                                            
  
  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
ss362757905	MGP_WTSI_4_107040651	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
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
rs223450249					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

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
ss362757905	MGP_WTSI_4_107040651	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:107225243 () rs orientation: forward

Symbol	Name	Function Class
Cpgi14540	CpG island 14540	within coordinates
Ndc1	NDC1 transmembrane nucleoporin	mRNA-UTR
Rr367664	regulatory region 367664	159 bp downstream
Rr596979	regulatory region 596979	252 bp distal
Rr596980	regulatory region 596980	657 bp distal
Rr596981	regulatory region 596981	within coordinates
Rr596982	regulatory region 596982	185 bp distal
Rr596983	regulatory region 596983	238 bp proximal
Tssr38245	transcription start site region 38245	292 bp downstream
Tssr38246	transcription start site region 38246	233 bp downstream
Tssr38247	transcription start site region 38247	8 bp downstream
Tssr38248	transcription start site region 38248	within coordinates
Tssr38249	transcription start site region 38249	15 bp upstream
Tssr38250	transcription start site region 38250	29 bp upstream
Tssr38251	transcription start site region 38251	275 bp upstream