rs221000200 SNP Detail

Summary

• ID
  rs221000200
• 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
  Chr2:144111538 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AACAATCCAA CTGGTTGGTG
  CGCCAGAGAC CGGTATTTAC TTACTAGATA AAAAGTTTGC GCCGGACGTG GTGGCGTATG
  CCTTTAATCC CAGCACTTGG GAGACGGATT TCTGAGTTCG AGGCCAGCCT GGTCTACAAA
  GTGAGTTCCA GGACAGCCGG GGATATACAG AGAAACTGTC TCGAAAAACA AAAACAAAAA
  M
  AAAAAAAAAA ATGTTTGCCC ATTCAAAGGT ACTTAAAATG AAATCTTAAT TCAGCTCTTA
  TTAAAATCTA AGAGCTCCCA TATTACTGAC GATTTTGTCC ACAAAACTGA CTCATAACCT
  ACCTGTGCGG TGGAAAATTC AAGTTTAAAG AGCCAATAAA AGTAGAATCC TTTATTGCCC
  GTATAGCAAT CCCTGTTTAT                                            
  
  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	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	CBA/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	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
ss355978207	MGP_WTSI_2_144095354	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	C	C	C	C	C	A	C	C	C	C	C	C	C	C	C	A	C	C	A	A	C	C	A	C	C	A	C	C	C	C	A	A	C	C	C	C	C	C	C	C	C	C	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	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	CBA/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	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
rs221000200					SNP	A	A	C	C	C	C	C	A	C	C	C	C	C	C	C	C	C	A	C	C	A	A	C	C	A	C	C	A	C	C	C	C	A	A	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
ss355978207	MGP_WTSI_2_144095354	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:144111538 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi12351	CpG island 12351			498 bp proximal
Mgme1	mitochondrial genome maintenance exonuclease 1			1286 bp upstream
Rr397362	regulatory region 397362			1133 bp upstream
Rr397363	regulatory region 397363			1798 bp upstream
Rr566423	regulatory region 566423			1427 bp distal
Rr566424	regulatory region 566424			106 bp distal
Rr566425	regulatory region 566425			196 bp proximal
Rr566426	regulatory region 566426			944 bp proximal
Rr566427	regulatory region 566427			1334 bp proximal
Snx5	sorting nexin 5			Intron
				Noncoding-Transcript-Variant
Tssr20524	transcription start site region 20524			956 bp upstream
Tssr20525	transcription start site region 20525			1004 bp upstream
Tssr20526	transcription start site region 20526			1260 bp upstream
Tssr20527	transcription start site region 20527			1393 bp upstream
Tssr26594	transcription start site region 26594			448 bp downstream
Tssr26595	transcription start site region 26595			822 bp downstream
Tssr26596	transcription start site region 26596			886 bp downstream
Tssr26597	transcription start site region 26597			1162 bp downstream
Tssr26598	transcription start site region 26598			1218 bp downstream
Tssr26599	transcription start site region 26599			1234 bp downstream