rs239643654 SNP Detail

Summary

• ID
  rs239643654
• 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
  Chr4:117012564 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AACCCGAACC AGACGGAGGT
  AACAGTCAGT GTAACTATGA CAAGTCCTTG CATTGGCAAG TGGTGTACAG GTGGCCAAGA
  CGGCCATAAC CACGCCTAAG GATACGTTTT CATCACCCTA GTTACCTCCA GAAAAAGCCA
  GACCCCCCCT AACACAGGAA GAACCCCAGT AAGGAACACA CCAAGCTTGC AGCTCTCCCA
  Y
  TCCTAGGCTC CAGTAGACCC TAAGCTTGGA GATTAGGGTG CACAGACCCT GCACGTGGAC
  ACACTTCCAT GTCCAGTCGC CAGCACCGAG AAACCTGAGC CTTACAAAGG TGATCACAGC
  CACTCGTGTT CCCCAGCAAA CACGCTCTAG CGCAGGGGAA GGCAGCCTCT CCCAGTCGTC
  CTCCCCCCGA CCCCCGCACG                                            
  
  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
ss362964214	MGP_WTSI_4_116827972	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	T	C	C	T	C	C	C	T	T	C	C	C	C	C	T	C	C	C	C	C	C	T	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	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
rs239643654					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C	C	C	T	T	C	C	C	C	C	T	C	C	C	C	C	C	T	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
ss362964214	MGP_WTSI_4_116827972	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:117012564 () rs orientation: forward

Symbol	Name	Function Class
Cpgi14653	CpG island 14653	within coordinates
Gm22980	predicted gene, 22980	1205 bp upstream
Gm26330	predicted gene, 26330	78 bp upstream
Rps8	ribosomal protein S8	within coordinates
Rr377051	regulatory region 377051	855 bp downstream
Rr398411	regulatory region 398411	552 bp upstream
Rr598069	regulatory region 598069	866 bp proximal
Snord38a	small nucleolar RNA, C/D box 38A	793 bp upstream
Snord55	small nucleolar RNA, C/D box 55	404 bp downstream
Tssr38607	transcription start site region 38607	1529 bp downstream
Tssr42956	transcription start site region 42956	477 bp downstream
Tssr42957	transcription start site region 42957	708 bp downstream
Tssr42958	transcription start site region 42958	755 bp downstream
Tssr42959	transcription start site region 42959	777 bp downstream
Tssr42960	transcription start site region 42960	818 bp downstream
Tssr42961	transcription start site region 42961	832 bp downstream