rs239790843 SNP Detail

Summary

• ID
  rs239790843
• Variation Type
  SNP
• Alleles
  A/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
  Chr7:13013798 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGGAAGGCTT CAGATATAGC
  TTAGTGGTAC AGTGTTTTCC TAGCAGCAAC AGACCCTGCC TGGGTTCTAT CTTCAGTAAT
  ATAAAGGGGA AGGGGGCAGA TAACGAAACT TAACTCTCAA AGAATAAAAA TGTGAAAAAA
  AATAAATGTC AGTAAAATTT TCTCATTCTA TGGAGAGCAG TCACCATTAA GATAGATCCA
  M
  CTGTATCTAT CCCATAATGC TGGGTTTACA GGCATGTACA ACCATGCCTG CCTGACATTA
  TTATTATTAT TATTATTATA ACATGGGTGC TGGAGATTCA AACTCATGTT CTCTCTCTCT
  TTTTAACAGC AGGCACTCTT ACCCACTGAG CCGTCTCGGC AGTCCCTGAA TACACTTGTT
  CTTTTATTTC CTTAAGAGTT                                            
  
  M = A/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	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
ss370658924	MGP_WTSI_7_13865221	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	A	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	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
rs239790843					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	A	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
ss370658924	MGP_WTSI_7_13865221	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr7:13013798 () rs orientation: forward

Symbol	Name	Function Class
Cpgi18339	CpG island 18339	528 bp distal
Lig1	ligase I, DNA, ATP-dependent	within coordinates
Rr400108	regulatory region 400108	930 bp downstream
Rr642459	regulatory region 642459	1739 bp distal
Rr642460	regulatory region 642460	1238 bp distal
Rr642461	regulatory region 642461	1425 bp distal
Rr642462	regulatory region 642462	597 bp distal
Rr642463	regulatory region 642463	1024 bp distal
Rr642464	regulatory region 642464	within coordinates
Tssr64539	transcription start site region 64539	1307 bp downstream
Tssr64540	transcription start site region 64540	998 bp downstream
Tssr64541	transcription start site region 64541	972 bp downstream
Tssr70659	transcription start site region 70659	1164 bp upstream
Zswim9	zinc finger SWIM-type containing 9	1151 bp upstream