rs6289906 SNP Detail

Summary

• ID
  rs6289906
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr4:108689514 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTTATTTGAA GCAAAAGCAA
  AGCCCAAATT AACTCTTTCT TATGGTGTAA ATGAAAGAAT AATTCCATTT CAGGTGGTCA
  GTATAATTAA GAAATCTTAT TCCTAAGGAG TATTTTATGG AAAAGACATA ATTTTAGGGC
  ATCTAGAAGC TTAAAGCAGC AGGGGAAGGA GAAATATGGC CTTTTGTCCA ACAGCAAGTT
  R
  GGCTGTGTAG GATTCTAATA GAAAAAGACA TTTAGACTCA GCCTGAGACC TAAAAGGTCA
  CCTGGTTTAA TCCCTACTTA ATATCTTTAA TGTACCTGTC ATTCTTGTTT CAAGTGTGAG
  GTCATCTCAG ATACCTGTTA GTGCAGCAGG GCATAAATTA TAAACAAAAT TGTTAGCTGC
  CTGGAAGGCC TGGAAAGTTC                                            
  
  R = A/G
  

  
  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	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	CZECHII/EiJ	DBA/2J	FVB/NJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss8695793	WI_WGS_4_106582461	WI	MOUSE	f	SNP							G		A
ss38279846	NES09494481	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G	G		G		G	G	A	G	G	A	G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	CZECHII/EiJ	DBA/2J	FVB/NJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs6289906					SNP	G	G	G	G	G	G	G	G	A	G	G	A	G	G	A	G

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
ss38279846	NES09494481	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:108689514 () rs orientation: forward

Symbol	Name	Function Class
Btf3l4	basic transcription factor 3-like 4	within coordinates
Cpgi14564	CpG island 14564	582 bp proximal
Rr376990	regulatory region 376990	482 bp upstream
Rr597224	regulatory region 597224	391 bp proximal
Rr597225	regulatory region 597225	1227 bp proximal
Rr597226	regulatory region 597226	1794 bp proximal
Tssr42738	transcription start site region 42738	1227 bp downstream
Tssr42739	transcription start site region 42739	1291 bp downstream
Tssr42740	transcription start site region 42740	1922 bp downstream