rs242584516 SNP Detail

Summary

• ID
  rs242584516
• 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
  Chr13:46120446 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGTTAACGTT GAGTTTCCTG
  TCGGGGCTCT GTCTAGTTTT GTTTTCCCTC CTGAGCTTTA TCCAGGTGAA GGTTAACAGT
  TCAGAGCTTA ACTGACTGGT GTCTTTTCGC TCCCTCTTGG TAAAGCTGTC TTTGAAATGG
  AGCAGACGCT CGCTGGCTGC CTGTGGGAAA GGCGTCTGCT TTGTGCTACA GGTATTGTTC
  Y
  GGCTGGCCTG TGAAACCGAC AAAGCTTCTG TTATTCGCTT CACTTGCAGA CAGCTTTCAT
  ATAAAAAAAA AAACAAATTT AATCTAAAAT ATTTTTATAA CAGAAAATAT TGGTTGCCAT
  GTTTTTGGCA TAACTGAGAT GTTTTTATTC CAGCTCATAA TCTGTAAACT GTCCAATCCA
  CCTCCACTCT ATTTTTAGAC                                            
  
  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	129S1/SvImJ	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
ss388492005	MGP_WTSI_13_46062339	EVA_MGPV3	EVA_MGPV3	f	SNP	T	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	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
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	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
rs242584516					SNP	T	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	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

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
ss388492005	MGP_WTSI_13_46062339	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:46120446 () rs orientation: forward

Symbol	Name	Function Class
5033430I15Rik	RIKEN cDNA 5033430I15 gene	462 bp downstream
Atxn1	ataxin 1	1979 bp upstream
Cpgi5536	CpG island 5536	667 bp distal
Gm56575	predicted gene, 56575	674 bp upstream
Rr403752	regulatory region 403752	1770 bp downstream
Rr478835	regulatory region 478835	1667 bp distal
Rr478836	regulatory region 478836	685 bp distal
Rr478837	regulatory region 478837	728 bp distal
Rr478838	regulatory region 478838	184 bp distal
Rr478839	regulatory region 478839	198 bp distal
Tssr119584	transcription start site region 119584	1739 bp downstream
Tssr119585	transcription start site region 119585	1494 bp downstream
Tssr122340	transcription start site region 122340	1969 bp upstream
Tssr122341	transcription start site region 122341	645 bp upstream