rs253949141 SNP Detail

Summary

• ID
  rs253949141
• 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
  Chr19:4252861 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TAGGGGATTA CCAGCATCCT
  CTCCTCCTCA CTTGCTCACG TCTTCGGTGG ATTCTGGCTG CTTCATTTCC CAAACAGATG
  GCAAAGTGGC CCTCCTTCTG TCTCCACTGT CCTCCTTTCA CTGTCCAGAC ACAGTCCTCA
  GTGACCCGCC CCCCCCCCCC CCCCCGGTGG GCTTAACTCT CCTGGCAAAG TCCAGTCTCT
  Y
  GATCAGGAAC TTTGAGGATC CAGGTCCCAC AGAGGTCTTC ACTGTCTCCT ACCCCACATG
  ATCACCTATC TCCATAGCCC TGCCAGGCTC TTAGCGGCCA CTCTGGCTGC TTCCAAGGCT
  GTAGCCTGCT TCTCCCATGC TGACTTCTCT TCCTGGGCTC AACAGCAAAG GTTCCCTCAG
  CAGAGAAAAC CCTAGGCTTT                                            
  
  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	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
ss401632785	MGP_WTSI_19_4202862	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T
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	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
rs253949141					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T

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
ss401632785	MGP_WTSI_19_4202862	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr19:4252861 () rs orientation: forward

Symbol	Name	Function Class
Cpgi10391	CpG island 10391	888 bp distal
Gm30082	predicted gene, 30082	within coordinates
Gm59014	predicted gene, 59014	1337 bp upstream
Rad9a	RAD9 checkpoint clamp component A	1200 bp upstream
Rr405788	regulatory region 405788	998 bp downstream
Rr542669	regulatory region 542669	1099 bp distal
Rr542670	regulatory region 542670	349 bp distal
Rr542671	regulatory region 542671	542 bp proximal
Rr542672	regulatory region 542672	847 bp proximal
Rr542673	regulatory region 542673	1348 bp proximal
Tssr154297	transcription start site region 154297	1046 bp downstream
Tssr154298	transcription start site region 154298	1332 bp upstream
Tssr154299	transcription start site region 154299	1349 bp upstream
Tssr157469	transcription start site region 157469	1437 bp upstream
Tssr157470	transcription start site region 157470	1273 bp upstream
Tssr157471	transcription start site region 157471	1239 bp upstream