rs238412561 SNP Detail

Summary

• ID
  rs238412561
• 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
  Chr4:140427339 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCGCTGCCTA AAAACCTTTT
  AAAGGCACCC TCAGCGTTTC TAATTGGCCA CACAGGGTGT TGTCGGGAGG ATAACCGCCC
  AACCAGCCAC CACCCCCGGA CAAGCTCCGG CGTGCCATTT CCTGAAACCC GGACCTGACG
  GCACACTTAG GCAGAATTCT TTTCTAGTTG GTTCTAATGT TTTATATCAA AGCATCACGG
  Y
  TTAATCTCTT CAATCTTTTC GAATGCCAGG TCTATTAAGA GGCTTTCAGA CGGTGCTTCT
  AATATCCCTG AAACGCACCA GTTGGTGCTC ATTTTCTGAG TTGTTTTACA TAAGTGCTTC
  CACCCAGGCT GGTGACTTTG ATCAAATAAC TTAGATTTGG TTCTCCAGGA TTCTCCGCCT
  GCCTTCAAAC GTTTGGTCCT                                            
  
  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
ss363501308	MGP_WTSI_4_140255943	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
rs238412561					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
ss363501308	MGP_WTSI_4_140255943	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:140427339 () rs orientation: forward

Symbol	Name	Function Class
Cpgi15194	CpG island 15194	49 bp distal
Cpgi15195	CpG island 15195	1037 bp proximal
Gm69527	predicted gene, 69527	within coordinates
Gm69529	predicted gene, 69529	within coordinates
Rcc2	regulator of chromosome condensation 2	513 bp upstream
Rr377298	regulatory region 377298	within coordinates
Rr603517	regulatory region 603517	145 bp distal
Rr603518	regulatory region 603518	23 bp proximal
Rr603519	regulatory region 603519	524 bp proximal
Rr603520	regulatory region 603520	1232 bp proximal
Rr603521	regulatory region 603521	1382 bp proximal
Tssr39970	transcription start site region 39970	146 bp downstream
Tssr39971	transcription start site region 39971	73 bp downstream
Tssr39972	transcription start site region 39972	53 bp downstream
Tssr39973	transcription start site region 39973	30 bp downstream
Tssr39974	transcription start site region 39974	307 bp upstream
Tssr39975	transcription start site region 39975	443 bp upstream
Tssr39976	transcription start site region 39976	459 bp upstream
Tssr39977	transcription start site region 39977	574 bp upstream
Tssr39978	transcription start site region 39978	1398 bp upstream
Tssr39979	transcription start site region 39979	1419 bp upstream
Tssr39980	transcription start site region 39980	1438 bp upstream
Tssr39981	transcription start site region 39981	1482 bp upstream
Tssr39982	transcription start site region 39982	1494 bp upstream
Tssr39983	transcription start site region 39983	1580 bp upstream
Tssr39984	transcription start site region 39984	1805 bp upstream
Tssr39985	transcription start site region 39985	1867 bp upstream
Tssr39986	transcription start site region 39986	1908 bp upstream
Tssr44270	transcription start site region 44270	378 bp upstream
Tssr44271	transcription start site region 44271	345 bp upstream
Tssr44272	transcription start site region 44272	205 bp upstream
Tssr44273	transcription start site region 44273	1041 bp downstream