rs230880394 SNP Detail

Summary

• ID
  rs230880394
• 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
  Chr17:52138193 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCTACCTATC TGGAGAATCT
  GACTACAAAA TAAAATTTCA CTCTTTCAGA AAATCCACTC TGGACAAGGT GTAAAATTAA
  GTAAAGTTTT TGGAAGGCTG AGCTTCTGTC ACCAGGCACA AACACTGTAA AAAATCCAGG
  TACTGCTTAA GGACAGAACC TGACTTCTGG CAGAAAGAGA CCAGACTCTT GCTCATTCCC
  Y
  TCTTCTGTCT TGGGAAAGTT GGGTTCTCTG GCCTCCAAGG ATACAAACAT GGAACCCCAG
  CCAATCAATC GGGAGCAGAA AAGGTTCTCT CCAGGGAATT GGGTGTCTTC CGGTCCCTAT
  GGACAAGTGA AATCCACGTC TTAACCCTGG GAATCCTACA TGCCTCAGAG AAAGTTCTCC
  CAGAAAGGGT GCAGAGGTCA                                            
  
  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
ss398453315	MGP_WTSI_17_51970490	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
rs230880394					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
ss398453315	MGP_WTSI_17_51970490	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:52138193 () rs orientation: forward

Symbol	Name	Function Class
Cpgi9312	CpG island 9312	290 bp proximal
Gm6934	predicted gene 6934	1654 bp upstream
Rr528750	regulatory region 528750	1332 bp distal
Rr528751	regulatory region 528751	within coordinates
Rr528752	regulatory region 528752	1497 bp proximal
Rr528753	regulatory region 528753	1796 bp proximal
Satb1	special AT-rich sequence binding protein 1	within coordinates
Tssr145165	transcription start site region 145165	1481 bp downstream
Tssr145166	transcription start site region 145166	1592 bp upstream
Tssr145167	transcription start site region 145167	1613 bp upstream
Tssr145168	transcription start site region 145168	1650 bp upstream
Tssr145169	transcription start site region 145169	1842 bp upstream
Tssr145170	transcription start site region 145170	1855 bp upstream
Tssr148677	transcription start site region 148677	1628 bp upstream
Tssr148678	transcription start site region 148678	1539 bp upstream
Tssr148679	transcription start site region 148679	719 bp downstream
Tssr148680	transcription start site region 148680	1442 bp downstream
Tssr148681	transcription start site region 148681	1470 bp downstream
Tssr148682	transcription start site region 148682	1501 bp downstream
Tssr148683	transcription start site region 148683	1527 bp downstream
Tssr148684	transcription start site region 148684	1910 bp downstream
Tssr148685	transcription start site region 148685	1948 bp downstream