rs257339031 SNP Detail

Summary

• ID
  rs257339031
• 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
  Chr6:56547491 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CAAACACTGA GAAAAATTCT
  TATACATGAC AATAACATGT CTGCTTATTA TTGCAGCCAC TAATTTTATG AGAGGATTTT
  ACATATAACA TTATATATAG TATATGTAGA TATATACATA TACACACACT CTATGTGTGT
  GTGTGTATAT AGTGTGTGTG TGTATGTGTA TGTGTGTGTG TGTGTGTGTG TTTTACATAG
  Y
  AACCACTTAA AGTTTCTAAT CACTCTCATT TTCTGCACTT CAAACTTTTA AATGAACCAT
  TTGTCTTCTT TTCTGCCAGG GAAGGTGCTG AAGTGAAGAG CCTGGACACC TGAGTTAGCA
  TCTCCCATAG TAAATTATCT AGAAAAAGAA AGCCTAGTGT GATGGAAATT TTTCCCTGAG
  TGAGTGAAAT TAAAATTATA                                            
  
  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	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss368413926	MGP_WTSI_6_56520500	EVA_MGPV3	EVA_MGPV3	f	SNP	T	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C	C	C	C	C	C	T	C	T	C	C	T	T	T	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	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs257339031					SNP	T	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C	C	C	C	C	C	T	C	T	C	C	T	T	T	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
ss368413926	MGP_WTSI_6_56520500	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:56547491 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi17476	CpG island 17476			1420 bp distal
Gm66600	predicted gene, 66600			1113 bp downstream
Pde1c	phosphodiesterase 1C			Intron
				Noncoding-Transcript-Variant
Rr631075	regulatory region 631075			1873 bp distal
Rr631076	regulatory region 631076			1091 bp distal
Tssr1858	transcription start site region 1858			1325 bp upstream
Tssr61134	transcription start site region 61134			1574 bp upstream
Tssr61135	transcription start site region 61135			1511 bp upstream
Tssr61136	transcription start site region 61136			1384 bp upstream
Tssr61137	transcription start site region 61137			1303 bp upstream