rs242501053 SNP Detail

Summary

• ID
  rs242501053
• 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
  Chr1:58624979 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACGCTGGAGC CAACAAGAAC
  AAAGTGCTCA GATACATCAA TGGGTTGCAG AGCTCTTCTT CTACCAGGGT CAGTCGAGTT
  ACTTGGAAAA ATAACTGCCA TGGGTTACAT AATGTACAAC CACCAATTTC TAGAGCTGAC
  CACCAATAAA TATCTTTCTT CTCCGCACCT CTCCCCATCC CAGCAAACGG CCCTAAGAAC
  M
  CCTAGGATTT CACGCAGGTG TCTGCAATAC CACGTCCTTC TCTTACCTGA GGCTTCTTGC
  AAGACATCCC TTCAGCCCTC ACTACCTGTG TCTTGCTCCC GCCTCCTTCC CGCCTCAGCC
  CGCGCCACCG ACACCCTAAC GCCCTTGCTA GGGCCCCAAG TTGCCCCACA ACACTCATCC
  CCAAGCCGCC TCGGCAGACG                                            
  
  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
ss349770139	MGP_WTSI_1_58642664	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	A	C	A	A	A	A	A	A	A	A	A	A	A	A	A	A	C	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
rs242501053					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	A	C	A	A	A	A	A	A	A	A	A	A	A	A	A	A	C	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
ss349770139	MGP_WTSI_1_58642664	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:58624979 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi281	CpG island 281			within coordinates
D1Mit324	DNA segment, Chr 1, Massachusetts Institute of Technology 324			1958 bp distal
Hycc2	hyccin PI4KA lipid kinase complex subunit 2			Intron
				Noncoding-Transcript-Variant
Ndufb3	NADH:ubiquinone oxidoreductase subunit B3			577 bp upstream
Rr411456	regulatory region 411456			1357 bp distal
Rr411457	regulatory region 411457			within coordinates
Rr411458	regulatory region 411458			361 bp proximal
Rr411459	regulatory region 411459			378 bp proximal
Rr411460	regulatory region 411460			575 bp proximal
Tssr93	transcription start site region 93			808 bp upstream
Tssr6781	transcription start site region 6781			561 bp upstream
Tssr6782	transcription start site region 6782			585 bp upstream
Tssr6783	transcription start site region 6783			771 bp upstream
Tssr11786	transcription start site region 11786			420 bp downstream