rs254236189 SNP Detail

Summary

• ID
  rs254236189
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:132798042 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGCTGGAGGG GAGACCTCAT
  AATTTGCGGG GTGGTTGCGT GGCTCCGCCT GAGCGCTCCT CCTAGTCTGG AAGGACTGAG
  TGAGGAGGGC GCCGAGGACG GTGGCCCGGG GGACCGGGAC CGTGGAATTG TCCAAGACCT
  TTGACCGAGG GTTCCGGAGA CCTCTGTACA GCTCCCGTTT TACATCTCTG TTCTGGCCTC
  Y
  TTGAGAAGGA CTTACCCCTA TTCGAGGCCG CCCCCAGTGT GTTTTGATTC CATCAAAGAA
  TTGGCATTTC GAAGTGTCTC TTGACTCTCC TTAGCTTCTC TAGCGCTTGG GTTTGTTTTG
  GAATTGGGGT TTTTACATCC TGAGTTTCCA GACTTCCCCA AAGGCGAAGC ACTAAATGGA
  AAGAAGAAGT TAATTGGAAA                                            
  
  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	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
ss359780810	MGP_WTSI_3_132755245	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	T	C	C	C	C	T	C	C	C	C	C	T	C	C	C	C	C	C	T	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
rs254236189					SNP	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	T	C	C	C	C	C	T	C	C	C	C	C	C	T	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
ss359780810	MGP_WTSI_3_132755245	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:132798042 () rs orientation: forward

Symbol	Name	Function Class
Gstcd	glutathione S-transferase, C-terminal domain containing	248 bp upstream
Ints12	integrator complex subunit 12	Intron
Rr398028	regulatory region 398028	1086 bp downstream
Rr398029	regulatory region 398029	223 bp downstream
Rr398030	regulatory region 398030	745 bp upstream
Rr585500	regulatory region 585500	467 bp distal
Rr585501	regulatory region 585501	431 bp distal
Rr585502	regulatory region 585502	259 bp distal
Rr585503	regulatory region 585503	within coordinates
Rr585504	regulatory region 585504	612 bp proximal
Tssr31768	transcription start site region 31768	439 bp downstream
Tssr31769	transcription start site region 31769	408 bp downstream
Tssr31770	transcription start site region 31770	374 bp downstream
Tssr31771	transcription start site region 31771	328 bp downstream
Tssr31772	transcription start site region 31772	289 bp upstream
Tssr35744	transcription start site region 35744	519 bp upstream
Tssr35745	transcription start site region 35745	498 bp upstream
Tssr35746	transcription start site region 35746	434 bp upstream
Tssr35747	transcription start site region 35747	242 bp upstream
Tssr35748	transcription start site region 35748	227 bp upstream
Tssr35749	transcription start site region 35749	97 bp downstream