rs223159697 SNP Detail

Summary

• ID
  rs223159697
• 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
  Chr13:42206642 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCTTGTGACT GTCTTTACGC
  TTTTTTGATT GTGTCCTGTT TTTGCACCTT GTAGTATGTA TTTCTTTCTC GAGAAAGAAT
  GGTCGATCAC TGGTCCTAGT CGCCACGGTG GTGCTGTCGT CTTTGAAAAT AACCACTTCT
  CCACCGCGGA TTTAAATGTG GGCTGGACAG CTAGGGACAG GGGGGCTGGA GGCTGCAAAA
  Y
  CGGGTCGCAC AAAGCTGTTA CAGGTTGGGA ATTTGCATAT TTTAACATTT AAGCTTGGGA
  GCTGTGGGAG GTCACGTGAT CGGCTTACAA TCCGAGTTCA CGCTTTAAAA ACTTCGTAAT
  ATCGTGACCG CTTAAAAGCT TTAGTTTTAA TACGGAACGG AACACTTACA GCTTTATCTT
  TAAATTCTCT GTGCAGTCAA                                            
  
  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
ss388403617	MGP_WTSI_13_42148535	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	C	C	C	C	C	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
rs223159697					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	C	C	C	C	C	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
ss388403617	MGP_WTSI_13_42148535	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:42206642 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Gm61288	predicted gene, 61288			1066 bp upstream
Gm61314	predicted gene, 61314			1365 bp upstream
Hivep1	human immunodeficiency virus type I enhancer binding protein 1			Intron
				mRNA-UTR
Rr403731	regulatory region 403731			1457 bp downstream
Rr403732	regulatory region 403732			109 bp downstream
Rr478104	regulatory region 478104			1376 bp distal
Rr478105	regulatory region 478105			1135 bp distal
Rr478106	regulatory region 478106			576 bp distal
Rr478107	regulatory region 478107			855 bp distal
Rr478108	regulatory region 478108			425 bp proximal
Rr478109	regulatory region 478109			991 bp proximal
Tssr119426	transcription start site region 119426			1844 bp downstream
Tssr119427	transcription start site region 119427			1393 bp downstream
Tssr119428	transcription start site region 119428			1291 bp downstream
Tssr119429	transcription start site region 119429			1159 bp downstream
Tssr119430	transcription start site region 119430			1094 bp downstream
Tssr119431	transcription start site region 119431			1038 bp downstream
Tssr119432	transcription start site region 119432			798 bp downstream
Tssr119433	transcription start site region 119433			144 bp downstream
Tssr122226	transcription start site region 122226			362 bp upstream
Tssr122227	transcription start site region 122227			222 bp upstream