rs239907246 SNP Detail

Summary

• ID
  rs239907246
• 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
  Chr1:55064693 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACATGCAGGC AAAAATATTA
  ATGCACATAA AATAAACTTT GCATTTATCC AACTGGGAGT ATGCTACATT GAAGATATCA
  ATAAGCCAAC AATCAAAGCT ACAAAATATC CATAAATCTC CATAAATCAA TAACCTATTA
  GGGTATGGGA CTCTACCTAT GCAGCTATAA GGAAGCCAGT AAGGAGTAAA CCATGCTTTC
  Y
  TTCAGTAAGC ACTTCCCCTC CCCCATGCTC TGGAAGTCCA ATAATTTCAC TGGTTCCCCA
  CAATGGAAAA CAATTAAAAT AAATAACCTA CCACTGACTG AACAAAACAG CGACACGATT
  CAATTTCCTA ATTATTTTAC AAACAATATC TGAAGTAGTC TAAAGATAAA TAATGAGGCC
  AAAAACATTT CTGGCTTTAA                                            
  
  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	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
ss349691836	MGP_WTSI_1_55082378	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	T	C	C	C	C
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	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
rs239907246					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	T	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
ss349691836	MGP_WTSI_1_55082378	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:55064693 () rs orientation: forward

Symbol	Name	Function Class
Cpgi259	CpG island 259	1286 bp proximal
Gm71172	predicted gene, 71172	1520 bp upstream
Rr371303	regulatory region 371303	669 bp upstream
Rr411122	regulatory region 411122	289 bp proximal
Rr411123	regulatory region 411123	1030 bp proximal
Rr411124	regulatory region 411124	1531 bp proximal
Rr411125	regulatory region 411125	1937 bp proximal
Rr411126	regulatory region 411126	1984 bp proximal
Sf3b1	splicing factor 3b, subunit 1	within coordinates
Tssr6707	transcription start site region 6707	815 bp upstream
Tssr11707	transcription start site region 11707	1714 bp upstream
Tssr11708	transcription start site region 11708	1843 bp downstream
Tssr11709	transcription start site region 11709	1939 bp downstream