rs259135078 SNP Detail

Summary

• ID
  rs259135078
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr1:135980593 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGGGGATGTC ACCGGCTGGA
  CTGGAAGGAA TGACAGCTGC CTGGCCGCAG GAGCCTGGGC TGGGCAGCAG GGGCTAATTT
  TACTCGCTGG GAGCAGAGAG AGTAATCCTC CCGCCCCCAC GCCCGACCCG TCTGCCTGCC
  TCAGCAGGAT AGGCTCAGTC AGGTCCAGTC CCCAAGGTGG GGGCACTGGG GACACAGGGA
  S
  GAGAGGGCAG TGGGCTGGGG GAAGAGAGGG GTGTCAGGGA AAGCCATGGA GCCGCCCTCA
  CCCCAGGACG AGGGCCTGAG GAAGAAGCAG CCGAAGAAAC CTGTTCCTGA GATTCTGCCG
  AGGCCCCCGC GGGCCTTGTT CTGCCTGACT CTACAGAACC CCCTGAGGAA GGCCTGCATC
  AGCATCGTGG AATGGAAGTA                                            
  
  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	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
ss351557363	MGP_WTSI_1_137949432	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	C	G	G	G	G	C	C	G	G	G	G	C	G	G	G	G	G	G	C	G	G	G	G	G	G	G	G	C	G	G	G
SNP Consensus Information
SNP					Consensus Type	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
rs259135078					SNP	C	C	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	C	G	G	G	G	C	C	G	G	G	G	C	G	G	G	G	G	G	C	G	G	G	G	G	G	G	G	C	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
ss351557363	MGP_WTSI_1_137949432	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:135980593 () rs orientation: forward

Symbol	Name	Function Class
Ascl5	achaete-scute family bHLH transcription factor 5	1485 bp downstream
Cacna1s	calcium channel, voltage-dependent, L type, alpha 1S subunit	within coordinates
Cpgi803	CpG island 803	1092 bp distal
Rr419346	regulatory region 419346	1607 bp distal
Tssr9037	transcription start site region 9037	94 bp downstream
Tssr9038	transcription start site region 9038	59 bp downstream
Tssr9039	transcription start site region 9039	29 bp downstream
Tssr9040	transcription start site region 9040	91 bp upstream