rs254005487 SNP Detail

Summary

• ID
  rs254005487
• 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
  Chr2:79284748 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCTGAGCGGC GGGCTGAGGG
  GTCCGTCAAA GGAAGGGCTG GTGCAGTCAG TTAGGGGGCT TTCAAAGAAG GGCTCCAGAG
  CTGCGCTGTA GGCGTGTGGC GGCGGCTTGA CGTGGAAGAC GTGGGAGCTG TCCATGGTGC
  CGTAGGGCGG GCTGGGCAGT CCAGGGGACT GGTAGGAGTA GGGATGCACC GGGAAGGAAG
  Y
  GCTGGCGGTT GGCAGATGCG GGGGCATGTC CGGGTTCTGC TCAGGCAAGA AAGTCCGAGG
  GTTGAGCTGC AGGCAGCCGG CGACCAAATT GGTAGTGGGC TGGGACAAAC CTTTGCAGAG
  CGTCTGTACG AAGGAGACCA GATCAGGGCT TTTGCCTGAG CGCAGGATCT CTGACAGAGC
  CCAGATGTAG TTCTTGGCCA                                            
  
  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/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
ss354588308	MGP_WTSI_2_79294561	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	T	C	C	C	C	C	C	C	C	C	C	C	C	C	C	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/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
rs254005487					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	T	C	C	C	C	C	C	C	C	C	C	C	C	C	C	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
ss354588308	MGP_WTSI_2_79294561	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:79284748 () rs orientation: forward

Symbol	Name	Function Class
Cpgi11842	CpG island 11842	within coordinates
Neurod1	neurogenic differentiation 1	within coordinates
Rr373416	regulatory region 373416	within coordinates
Rr559991	regulatory region 559991	428 bp distal
Tssr24892	transcription start site region 24892	1187 bp upstream
Tssr24893	transcription start site region 24893	444 bp upstream
Tssr24894	transcription start site region 24894	129 bp upstream
Tssr24895	transcription start site region 24895	88 bp upstream
Tssr24896	transcription start site region 24896	12 bp upstream
Tssr24897	transcription start site region 24897	245 bp downstream
Tssr24898	transcription start site region 24898	295 bp downstream
Tssr24899	transcription start site region 24899	546 bp downstream
Tssr24900	transcription start site region 24900	561 bp downstream
Tssr24901	transcription start site region 24901	582 bp downstream
Tssr24902	transcription start site region 24902	617 bp downstream
Tssr24903	transcription start site region 24903	668 bp downstream
Tssr24904	transcription start site region 24904	1897 bp downstream