rs254110546 SNP Detail

Summary

• ID
  rs254110546
• 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
  Chr2:31971150 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CACTCAGAGT GGCTAGGACA
  CTTCCTAGGG TCACACCCTG GAGAGAGTCT AAGGTACACA AGATTCATCT AACTAGGAAC
  CCAGGTGGGT AAGAGTGGAG TGAAGTCACT CCAGGCTCTT GATACCCTGG GAGCTGCTCA
  AAGCCATCAG GGAAGCCATC AGGTTCACCT AGTGTTTCTC AACCATCTGG ATGCTTTGCA
  M
  ATTTGGGAAG AGGTGTGAGG AGAATCTGGC TTGTGAAAGA CCTCCCTGAA TTCCTGAGTC
  TTGCCACCAT CTCGGGACAG CTGCGTATCC AGGCTTAAAA AGAGGAAGAG CAGGGCTGGC
  GAGATGGCTC AGTGGTTAAG AGCACCGATT GCTCTTCCGA AGGTTCCGAG TTCAAATCCC
  AGCAACCACG TGGTGGCTCA                                            
  
  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	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
ss353550826	MGP_WTSI_2_31936658	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	C	A	A	A	A	A	A	A	A	A	A	A	A	C	A	A	A	A	A	A	A	A	A	A	A	C	A	A	A	A	A	A	A	A
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
rs254110546					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	C	A	A	A	A	A	A	A	A	A	A	A	A	C	A	A	A	A	A	A	A	A	A	A	A	C	A	A	A	A	A	A	A	A

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
ss353550826	MGP_WTSI_2_31936658	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:31971150 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
1700020L05Rik	RIKEN cDNA 1700020L05 gene			1224 bp upstream
Cpgi11492	CpG island 11492			1460 bp proximal
Cpgi11493	CpG island 11493			1995 bp proximal
Fam78a	family with sequence similarity 78, member A			Intron
				Noncoding-Transcript-Variant
Rr396884	regulatory region 396884			90 bp upstream
Rr554791	regulatory region 554791			1646 bp distal
Rr554792	regulatory region 554792			954 bp distal
Rr554793	regulatory region 554793			within coordinates
Rr554794	regulatory region 554794			220 bp proximal
Rr554795	regulatory region 554795			885 bp proximal
Tssr17241	transcription start site region 17241			414 bp upstream
Tssr17242	transcription start site region 17242			445 bp upstream
Tssr23454	transcription start site region 23454			1788 bp upstream