rs242135790 SNP Detail

Summary

• ID
  rs242135790
• Variation Type
  SNP
• Alleles
  A/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
  Chr1:167517077 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGTGCCACTG GGATATCGGA
  CCTGGTTGGT CCCGGCTTGG CCCTGGCTCT GAGAGCAGGC GTACCCCCAC CCCATCACAC
  AGAGTACCAT AGTTCTAGTG GTGGGATCCC TAGGGGCCAC ATTAGTATAG GATGGGGCGG
  AGTCGGTCTT GGAATGGGAA ACCTGGGGAC AGGGGTGGGG GTGGGGGTTA GGAGAACGCA
  R
  TTAGGGGGCG GAGGCCTTAG CACATAACGC GTTGACTTCA AGTGAAATCA GAGCCGTCCG
  AGCAGTTCAC GGTGGCTCTT CTCTCTCCTC CCACCTTACA TTTCCCTTGT CTGGACTCTA
  CCCTCTAGGC TCATTCTTGT CGCCCTGGAC ACTGCTTCTG TCCTGTCCCA GGAGAGTGGC
  AACTGAGGGT GCGGAGTCCC                                            
  
  R = A/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	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
ss352293307	MGP_WTSI_1_169619639	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G
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
rs242135790					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G

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
ss352293307	MGP_WTSI_1_169619639	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:167517077 () rs orientation: forward

Symbol	Name	Function Class
Lmx1a	LIM homeobox transcription factor 1 alpha	Intron
Rr422749	regulatory region 422749	1762 bp distal
Rr422750	regulatory region 422750	within coordinates
Rr422751	regulatory region 422751	60 bp proximal
Tssr9906	transcription start site region 9906	875 bp downstream
Tssr9907	transcription start site region 9907	382 bp downstream
Tssr9908	transcription start site region 9908	291 bp downstream
Tssr9909	transcription start site region 9909	17 bp upstream
Tssr9910	transcription start site region 9910	44 bp upstream
Tssr9911	transcription start site region 9911	126 bp upstream
Tssr14859	transcription start site region 14859	459 bp upstream
Tssr14860	transcription start site region 14860	99 bp upstream