rs235624939 SNP Detail

Summary

• ID
  rs235624939
• 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
  Chr13:58421819 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGACGCGGTG TCCAAGCCTG
  CAAGCGACAC CGGCGTCGGG TGGGCGCCCC GGGGAGCCCC GAACGGGCGG CCGCACCTGC
  TGTCACTCCC GCGGCCGGCC GCGGCGGACC AGGCCTGCGG CCCGCACTCC CCCGCAGCCT
  CCGCGGCCCT CCCGCCGCCC GGCCCCGCTC GGCTCAGCCC CGCTCGGCTC CGCTCCGCTC
  S
  GCTCCCCGCC TCAGGCCGCA CTCGGCCGCG TCCCCTCAGC CACGAGCTGC GAGGCTCCGT
  AGACTCACCG GGCCTCCCTC GCCGCGGTGC GGCCGCTCCC GTCTCCCCGC CGCTCCCGCG
  CTACCCCCGG GCGTTGGGCG CGGGCCGCGG GGCGTCCGCA GTAACGGGCC CGCGGAGGGC
  GGCGGCGCGC GGAGGGCGGG                                            
  
  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	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/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	SWR/J	WSB/EiJ
ss388759160	MGP_WTSI_13_58375366	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	G	C	C
SNP Consensus Information
SNP					Consensus Type	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/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	SWR/J	WSB/EiJ
rs235624939					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	G	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
ss388759160	MGP_WTSI_13_58375366	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:58421819 () rs orientation: forward

Symbol	Name	Function Class
Cpgi5724	CpG island 5724	within coordinates
Gkap1	G kinase anchoring protein 1	within coordinates
Rr481008	regulatory region 481008	within coordinates
Rr481009	regulatory region 481009	173 bp proximal
Tssr120072	transcription start site region 120072	247 bp upstream
Tssr122823	transcription start site region 122823	91 bp downstream
Tssr122824	transcription start site region 122824	116 bp downstream
Tssr122825	transcription start site region 122825	258 bp downstream
Tssr122826	transcription start site region 122826	335 bp downstream
Tssr122827	transcription start site region 122827	362 bp downstream
Tssr122828	transcription start site region 122828	456 bp downstream
Tssr122829	transcription start site region 122829	499 bp downstream
Tssr122830	transcription start site region 122830	828 bp downstream
Tssr122831	transcription start site region 122831	1642 bp downstream
Tssr122832	transcription start site region 122832	1695 bp downstream