rs239479032 SNP Detail

Summary

• ID
  rs239479032
• Variation Type
  SNP
• Alleles
  C/T

• 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
  Chr12:8970965 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TATTCAGTGT TTATTTGATT
  ATGCCTATTA TCCACAGCTG CACACTATGG TACAGTTTCA TTCCTTCTCA AGGTAGCTAC
  AAGCCTTGTT TGTTTGTTTG TTTGTTTTTG AGACAGGGTT TCTCTGCATA GCCCAGGCTG
  GCCTTGAACT CAGAAATCCA CCTGCCTCTG CCTCCCAAGT GCTGGGATTA AAGGCGTGCG
  Y
  CACCACAGCC CGGCTGATAG CCACAAATCT TAAAACAAAT ACAAAATAAA TTCAGTCAAA
  AACTTGACTC AGTTAATGAG GATCATAAGA TGTTAGAAGG AACTATAGAG TGAATATAAA
  GCACCCATTG TTGAAGTAAA AATGATAACT GAATCACCCA ACTTATGTCA AATGGCTTTC
  TCTGAGAAGA GGTATGAGTC                                            
  
  Y = C/T
  

  
  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
ss385082884	MGP_WTSI_12_8927771	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C	C	C	T	T	C	C	T	C	C	T	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	T	T
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
rs239479032					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C	C	C	T	T	C	C	T	C	C	T	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	T	T

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
ss385082884	MGP_WTSI_12_8927771	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr12:8970965 () rs orientation: forward

Symbol	Name	Function Class
Cpgi4400	CpG island 4400	433 bp proximal
Gm60663	predicted gene, 60663	within coordinates
Laptm4a	lysosomal-associated protein transmembrane 4A	1107 bp upstream
Rr403227	regulatory region 403227	840 bp upstream
Rr462715	regulatory region 462715	143 bp proximal
Rr462716	regulatory region 462716	644 bp proximal
Rr462717	regulatory region 462717	781 bp proximal
Rr462718	regulatory region 462718	884 bp proximal
Rr462719	regulatory region 462719	1638 bp proximal
Tssr112751	transcription start site region 112751	633 bp upstream
Tssr112752	transcription start site region 112752	722 bp upstream
Tssr112753	transcription start site region 112753	742 bp upstream
Tssr112754	transcription start site region 112754	1052 bp upstream
Tssr112755	transcription start site region 112755	1077 bp upstream
Tssr112756	transcription start site region 112756	1096 bp upstream
Tssr115725	transcription start site region 115725	879 bp downstream