rs238116394 SNP Detail

Summary

• ID
  rs238116394
• 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
  Chr3:153619115 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GATCAGTGAT CCAAATCCTC
  AGCTGTGTAG GCACTTGGAA GCCAACCTGA GCTCGAGTCC CTATCCCCAA TACCCTCGAA
  GATTGATCAG TTATAGAGTG TCTGTTACCC AGCTAATCAA AAAGCGCCAC ATATATTGCT
  ATGGAAAGAT CCTTGAAAGA CACCAGGTGA AAATACATGC TTCGTTTTGA TCCCAGAAAT
  M
  ATTAAAATAA GGTTAATTTT TCCACTCTGT GCTGGTAAAT TAATATGGTT TAACCTCTTC
  ATTTTTAACC TTTTTTTAAA GTCCTGGGCC TTGAACTCAC AACTGAAAAT GCTAGGCATG
  CGATCTCCCC CGCCCAGTTT GCCTCTTCAA AGAATAAAGT ATGCCTCCCC ACCCTAAAGA
  ACTATAGCTG CAATGCAACT                                            
  
  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
ss360307020	MGP_WTSI_3_153576442	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	A	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	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
rs238116394					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	A	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
ss360307020	MGP_WTSI_3_153576442	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:153619115 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13963	CpG island 13963	168 bp distal
Gm24494	predicted gene, 24494	1788 bp upstream
Gm43400	predicted gene 43400	within coordinates
Rabggtb	Rab geranylgeranyl transferase, b subunit	512 bp upstream
Rr587794	regulatory region 587794	843 bp distal
Rr587795	regulatory region 587795	373 bp distal
Rr587796	regulatory region 587796	within coordinates
Snord45c	small nucleolar RNA, C/D box 45C	1289 bp upstream
Tssr36248	transcription start site region 36248	1270 bp upstream
Tssr36249	transcription start site region 36249	518 bp upstream
Tssr36250	transcription start site region 36250	488 bp upstream