rs248523539 SNP Detail

Summary

• ID
  rs248523539
• Variation Type
  SNP
• Alleles
  A/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
  Chr8:25592117 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGGGGAGGTG GCCCATTGGG
  CCACCTCCGG TCGCCGTCCA CCACCCGGAC TGGCGCCACC AAGCAAACCC AGCCGCCCTG
  CTCCCCTCTC TGCCCTCCGC GCCCGGACCC TTGCGCCTCT CTGCCCGACT CACCGCGCTC
  TGCGCAGCAA GGGTCGCATC GGGTCCCAGA GCTCTGCGCC TCGGGGCTTC GCTTCCCGCC
  W
  GTCCTGCGGC ACACTTCTCC CTTATCCTCA GCTGTCCTCC AAGGCCGTCT CTCGACTCTT
  TTTTTCCGGG TTAATTTCGT TTCACATTAA AGCAAAACCC AGCCCCGGAT GTGAGTACAA
  TGCTCCTCGG GCCTCCAGGG GGGAGGAGAG GGGTGCGGAG ACCTCGAGGG GACAGCAGCG
  GGGGATGGCG GGGGGGAGGA                                            
  
  W = A/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
ss373995055	MGP_WTSI_8_26212573	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	T	T
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
rs248523539					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	T	T

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
ss373995055	MGP_WTSI_8_26212573	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr8:25592117 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
5830408C22Rik	RIKEN cDNA 5830408C22 gene			78 bp upstream
Cpgi20179	CpG island 20179			within coordinates
Gm45745	predicted gene 45745			1388 bp downstream
Gm63711	predicted gene, 63711			1822 bp downstream
Gm63713	predicted gene, 63713			1366 bp downstream
Plekha2	pleckstrin homology domain-containing, family A (phosphoinositide binding specific) member 2			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Rr368503	regulatory region 368503			917 bp upstream
Rr661038	regulatory region 661038			875 bp distal
Rr661039	regulatory region 661039			359 bp distal
Rr661040	regulatory region 661040			127 bp distal
Rr661041	regulatory region 661041			268 bp distal
Rr661042	regulatory region 661042			within coordinates
Rr661043	regulatory region 661043			265 bp proximal
Rr661044	regulatory region 661044			617 bp proximal
Rr661045	regulatory region 661045			1766 bp proximal
Tssr2524	transcription start site region 2524			474 bp downstream
Tssr76668	transcription start site region 76668			997 bp downstream
Tssr76669	transcription start site region 76669			215 bp downstream
Tssr76670	transcription start site region 76670			148 bp downstream
Tssr76671	transcription start site region 76671			1384 bp upstream
Tssr80677	transcription start site region 80677			493 bp upstream
Tssr80678	transcription start site region 80678			388 bp upstream
Tssr80679	transcription start site region 80679			309 bp upstream
Tssr80680	transcription start site region 80680			6 bp downstream
Tssr80681	transcription start site region 80681			78 bp downstream
Tssr80682	transcription start site region 80682			268 bp downstream
Tssr80683	transcription start site region 80683			442 bp downstream
Tssr80684	transcription start site region 80684			913 bp downstream