rs239487271 SNP Detail

Summary

• ID
  rs239487271
• 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
  Chr13:88970414 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CACCTTTGGA AATGCCGCTC
  AAGGGGCCAC AGTGGGTCCT CAGTGCGTGC ACGGCGTGAG GAGCGCTACG AAAGAGGCGA
  TGCTCCCTGG ATACCCTGCC AAAGTGCTAG CAAAGTCCGT GTGGAGTGCC CCAGGCTGAG
  CCTGGGAAGA GGGTGCGATC TAGAAAATAA GAAGATTGAG GGGGTGTGAA GGGGTTGTCT
  Y
  CCTAGGCTTT TTTTTTGCTA GTGATTCCCT GCGCGACCCC TGACTAGCAA ATATCAATGT
  TCTTGGCCGA TGACAGCGGA CAGGGTTGTG AGGTTGTGAT AGAGACCTGA CAGAGCTAAG
  TGTGCTGGGC CATCATCTAG TAGGTGCTAG AATAGCCTGG ATAACCACCG GGCGGTAAGC
  TGGATGCAGT GCTCTGGTGC                                            
  
  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	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
ss389409043	MGP_WTSI_13_88961900	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T
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	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
rs239487271					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T

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
ss389409043	MGP_WTSI_13_88961900	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:88970414 () rs orientation: forward

Symbol	Name	Function Class
Cpgi5919	CpG island 5919	13 bp distal
Cpgi5920	CpG island 5920	1343 bp proximal
Edil3	EGF-like repeats and discoidin I-like domains 3	within coordinates
Gm38504	predicted gene, 38504	1889 bp upstream
Rr483401	regulatory region 483401	643 bp distal
Rr483402	regulatory region 483402	1015 bp distal
Tssr120562	transcription start site region 120562	775 bp downstream
Tssr120563	transcription start site region 120563	715 bp downstream
Tssr120564	transcription start site region 120564	704 bp downstream
Tssr120565	transcription start site region 120565	692 bp downstream
Tssr120566	transcription start site region 120566	672 bp downstream
Tssr120567	transcription start site region 120567	619 bp downstream
Tssr120568	transcription start site region 120568	611 bp downstream
Tssr120569	transcription start site region 120569	576 bp downstream
Tssr120570	transcription start site region 120570	556 bp downstream
Tssr120571	transcription start site region 120571	534 bp downstream
Tssr120572	transcription start site region 120572	381 bp downstream
Tssr120573	transcription start site region 120573	353 bp downstream
Tssr120574	transcription start site region 120574	319 bp downstream
Tssr120575	transcription start site region 120575	1296 bp upstream
Tssr120576	transcription start site region 120576	1919 bp upstream
Tssr123374	transcription start site region 123374	500 bp upstream