rs260829638 SNP Detail

Summary

• ID
  rs260829638
• Variation Type
  SNP
• Alleles
  G/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
  Chr3:89301433 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCTGTAGGGT CACCACCTGG
  GGAGGGAATG GTATGAGAGG TTACGGATAC GCTGCTGGGG ATGAAGACCT AAAATTTAGA
  AAGAGTGGGG TCCTGCCGAG GGGCTTTAAC CAGGTCAGAG CCCCAGGAAG AGAGAGAACC
  TCTAGACATT GAGCTTCAGC CTCTTGGCCC ATCCCCCTCC GAGGGAGCGG GGGAGTCGAG
  K
  CTGTGGGCAC TCTGTGTCCC TCCCCACGCG TGACGGCGCC CCGCGGGGAG GGAACAGTGC
  CCGGGGCAAG GAGCCTTTGC GCTCTAGCCA GTGCCCGTTG CTGCCTTGGC ATTTTCAAAG
  GGGAGGGACT GAGTCTGGGA AGGGGAAGGG GGAGGTGCGC TCCCTCTGGG GCCCCGACGC
  TTTGCCTTCA ACCAGCCGGT                                            
  
  K = G/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	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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss358811627	MGP_WTSI_3_89198048	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	T	T	G	T	T	T	T	G	G	T	T	T	T	T	T	T	T	T	T	G	T	T	T	T	T	T	G	G	T	T	T
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs260829638					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	T	T	T	T	G	G	T	T	T	T	T	T	T	T	T	T	G	T	T	T	T	T	T	G	G	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
ss358811627	MGP_WTSI_3_89198048	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:89301433 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13427	CpG island 13427			1583 bp distal
Cpgi13428	CpG island 13428			873 bp distal
Cpgi13429	CpG island 13429			within coordinates
Cpgi13430	CpG island 13430			1913 bp proximal
Gm15417	predicted gene 15417			within coordinates
Rr375331	regulatory region 375331			1375 bp downstream
Rr397788	regulatory region 397788			260 bp downstream
Rr580071	regulatory region 580071			1956 bp distal
Rr580072	regulatory region 580072			775 bp distal
Rr580073	regulatory region 580073			within coordinates
Rr580074	regulatory region 580074			575 bp proximal
Rr580075	regulatory region 580075			1095 bp proximal
Rr580076	regulatory region 580076			1596 bp proximal
Rr580077	regulatory region 580077			1823 bp proximal
Tssr30098	transcription start site region 30098			1918 bp downstream
Tssr30099	transcription start site region 30099			1875 bp downstream
Tssr30100	transcription start site region 30100			262 bp downstream
Tssr30101	transcription start site region 30101			142 bp upstream
Tssr30102	transcription start site region 30102			1583 bp upstream
Tssr34133	transcription start site region 34133			934 bp upstream
Tssr34134	transcription start site region 34134			790 bp upstream
Tssr34135	transcription start site region 34135			442 bp upstream
Zbtb7b	zinc finger and BTB domain containing 7B			Intron
				Noncoding-Transcript-Variant