rs221617304 SNP Detail

Summary

• ID
  rs221617304
• Variation Type
  SNP
• Alleles
  A/C

• 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
  Chr3:34705167 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCCCCCGGCG GGAACAGCAT
  GGCGAGCGGG GTTGGGGTGG GCGCCGGCCT GGGTGCGGGC GTGAACCAGC GCATGGACAG
  CTACGCGCAC ATGAACGGCT GGAGCAACGG CAGCTACAGC ATGATGCAGG AGCAGCTGGG
  CTACCCGCAG CACCCGGGCC TCAACGCTCA CGGCGCGGCA CAGATGCAAC CGATGCACCG
  M
  TACGACGTCA GCGCCCTGCA GTACAACTCC ATGACCAGCT CGCAGACCTA CATGAACGGC
  TCGCCCACCT ACAGCATGTC CTACTCGCAG CAGGGCACCC CCGGTATGGC GCTGGGCTCC
  ATGGGCTCTG TGGTCAAGTC CGAGGCCAGC TCCAGCCCCC CCGTGGTTAC CTCTTCCTCC
  CACTCCAGGG CGCCCTGCCA                                            
  
  M = A/C
  

  
  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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss357517502	MGP_WTSI_3_34549940	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	A	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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs221617304					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	A	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
ss357517502	MGP_WTSI_3_34549940	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:34705167 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13072	CpG island 13072	within coordinates
Gm64654	predicted gene, 64654	within coordinates
Gm64662	predicted gene, 64662	1153 bp upstream
Gm64674	predicted gene, 64674	687 bp downstream
Rr370604	regulatory region 370604	786 bp downstream
Rr575166	regulatory region 575166	1164 bp distal
Rr575168	regulatory region 575168	603 bp distal
Rr575169	regulatory region 575169	1433 bp proximal
Rr575170	regulatory region 575170	1901 bp proximal
Sox2	SRY (sex determining region Y)-box 2	Coding-Synonymous
Sox2ot	SOX2 overlapping transcript (non-protein coding)	within coordinates
Tssr28821	transcription start site region 28821	1084 bp downstream
Tssr28822	transcription start site region 28822	1013 bp downstream
Tssr28823	transcription start site region 28823	968 bp downstream
Tssr28824	transcription start site region 28824	829 bp downstream
Tssr28825	transcription start site region 28825	785 bp downstream
Tssr28826	transcription start site region 28826	238 bp downstream
Tssr28827	transcription start site region 28827	53 bp upstream
Tssr32977	transcription start site region 32977	1283 bp upstream
Tssr32978	transcription start site region 32978	1249 bp upstream
Tssr32979	transcription start site region 32979	1143 bp upstream
Tssr32980	transcription start site region 32980	298 bp upstream
Tssr32981	transcription start site region 32981	18 bp downstream