rs243942239 SNP Detail

Summary

• ID
  rs243942239
• Variation Type
  SNP
• Alleles
  C

• 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
  Chr1:152778692 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCTGGCCTGT GGGGCGCAGG
  GACGCTCCGG CTCCGGAGGG GGGGGGGAAA AAGAAGGGGA AAGGGGCGGG GAAAGAGGAG
  GGGAGAAGCA GAGGAAGGAA GTCGGGTTCG CTCTCGCGAG ACTTCAGCAG CGCCGGTCCC
  TCTGGGTGCT TTCCGCCGCT CTGTAGCGCT CCCTCTTGGG ATCGGCGAGC GGTGCGGTGC
  C
  CGCGCGCCGG CCGAACGATC CGGTGCTGGT GCCCGGCGGC CTCCTAAGGC TCCGTCCTGT
  TCCTCCCGGG CGCGGGGGCG GCCCCCGGCT CACCGCGGAC ATCGAGCCCA GAGCAGCCCG
  GAGTCACACT CAAAGCCTTC CGCCCGGCCA CCCGCCCACT TCTCACTTCC TTCCTTCTTT
  CTTTTTTTTT TTTTTCCCAC                                            
  
  C = 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	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	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
ss351959056	MGP_WTSI_1_154750071	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	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	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
rs243942239					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C

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
ss351959056	MGP_WTSI_1_154750071	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:152778692 () rs orientation: forward

Symbol	Name	Function Class
Cpgi860	CpG island 860	within coordinates
Cpgi861	CpG island 861	1745 bp proximal
D1Mit502	DNA Segment, Chr 1 Massachusetts Institute of Technology 502	1180 bp distal
Gm70930	predicted gene, 70930	1116 bp upstream
Rr396386	regulatory region 396386	314 bp downstream
Rr396387	regulatory region 396387	191 bp upstream
Rr396388	regulatory region 396388	1592 bp upstream
Rr420557	regulatory region 420557	330 bp distal
Rr420558	regulatory region 420558	within coordinates
Rr420559	regulatory region 420559	626 bp proximal
Rr420560	regulatory region 420560	1127 bp proximal
Smg7	SMG7 nonsense mediated mRNA decay factor	295 bp upstream
Tssr9437	transcription start site region 9437	68 bp downstream
Tssr9438	transcription start site region 9438	19 bp downstream
Tssr9439	transcription start site region 9439	862 bp upstream
Tssr14242	transcription start site region 14242	272 bp upstream
Tssr14243	transcription start site region 14243	191 bp upstream
Tssr14244	transcription start site region 14244	162 bp upstream
Tssr14245	transcription start site region 14245	122 bp downstream
Tssr14246	transcription start site region 14246	147 bp downstream