rs249890620 SNP Detail

Summary

• ID
  rs249890620
• 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
  Chr1:135692892 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTTTTCGACA CCGAGGACCA
  AAACAGGAGG TGTGAGTACA AAGAGGTCTT CTTTCTGACT AATTATTTAT CATTAGTCCC
  AGAACCTTTA CGATTAACAT GTCCATGAGT AGGTGTTTAA GAAACTTTGG CCTGGAGGGG
  TTGACCAAGA GGGCCAGATG AGGGAGGTCC TAGGAGAGAC ATCTTTCTCC GGCTTCTGAC
  Y
  TTATATGATG GAAGACATAG TAGGAAGAGA GAAATAACTG AGTTGGCAGA TCTGTCCCGG
  GTCTTCACGA ATGGTCACTA AGTTGCTCTT CGCAACAATC CTACCAGATC AGAATGGATT
  AGTTATCCCA TTTGATACAT GAAAGTATGG AATAAGGTTA GAGCCATTGG CCAGGTAGGA
  GAGGTTTGAA GTCAACTGAG                                            
  
  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
ss351549706	MGP_WTSI_1_137661731	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
rs249890620					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
ss351549706	MGP_WTSI_1_137661731	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:135692892 () rs orientation: forward

Symbol	Name	Function Class
Cpgi797	CpG island 797	385 bp proximal
Gm70736	predicted gene, 70736	159 bp downstream
Phlda3	pleckstrin homology like domain, family A, member 3	965 bp upstream
Rr372092	regulatory region 372092	117 bp upstream
Rr419268	regulatory region 419268	927 bp distal
Rr419269	regulatory region 419269	475 bp proximal
Tssr223	transcription start site region 223	916 bp upstream
Tssr224	transcription start site region 224	1035 bp upstream
Tssr8974	transcription start site region 8974	931 bp upstream
Tssr8975	transcription start site region 8975	1053 bp upstream
Tssr8976	transcription start site region 8976	1064 bp upstream
Tssr8977	transcription start site region 8977	1083 bp upstream
Tssr8978	transcription start site region 8978	1087 bp upstream