rs246220001 SNP Detail

Summary

• ID
  rs246220001
• Variation Type
  SNP
• Alleles
  C/G

• 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
  Chr2:31972093 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CATGCAGAAC AAGACCCAAG
  GGCTCCAGGG TCCCATGTAG ATCTATCTCA TTCTAAGAGA CCAAACCACA GAGATGAAAC
  CAATGTGTCC CTCTAGCCGC TCCTAGTCAG GGCCCCACCG GAGGGACACT GGATGCTGAC
  CCTTGACCTC CAGTGGGAGC AAAGCTGCAC ACTGCAGAGC AAACTGGGTT TCTGAAGTCC
  S
  TTTCAAACAC ACACTGCCAC GGCCCACCAC CACTGACAAT GGTAAAGCTG GCCTCCGAAG
  CTCTTCTGTG CATCTGAGCC TCCACACACA ACTCAGACAA GTTCAGACCC CACGGCAAAG
  TCCTGTGCAA AGAAGTCTGG AAGCTGTTTT GAGGCTTCCA ACCACTCCCA TCAGCTAATG
  GGTTCATGGA GGCCTGAGCC                                            
  
  S = C/G
  

  
  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
ss353550840	MGP_WTSI_2_31937601	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	G	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
rs246220001					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	G	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
ss353550840	MGP_WTSI_2_31937601	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:31972093 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
1700020L05Rik	RIKEN cDNA 1700020L05 gene			281 bp upstream
Cpgi11492	CpG island 11492			517 bp proximal
Cpgi11493	CpG island 11493			1052 bp proximal
Fam78a	family with sequence similarity 78, member A			Intron
				Noncoding-Transcript-Variant
Rr396884	regulatory region 396884			553 bp downstream
Rr554792	regulatory region 554792			1897 bp distal
Rr554793	regulatory region 554793			851 bp distal
Rr554794	regulatory region 554794			702 bp distal
Rr554795	regulatory region 554795			37 bp distal
Rr554796	regulatory region 554796			1664 bp proximal
Rr554797	regulatory region 554797			1692 bp proximal
Tssr17241	transcription start site region 17241			519 bp downstream
Tssr17242	transcription start site region 17242			460 bp downstream
Tssr17243	transcription start site region 17243			1198 bp upstream
Tssr17244	transcription start site region 17244			1786 bp upstream
Tssr23455	transcription start site region 23455			1139 bp downstream
Tssr23456	transcription start site region 23456			1223 bp downstream
Tssr23457	transcription start site region 23457			1540 bp downstream
Tssr23458	transcription start site region 23458			1569 bp downstream
Tssr23459	transcription start site region 23459			1702 bp downstream