rs6401809 SNP Detail

Summary

• ID
  rs6401809
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  142
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr7:118456388 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        TACAG TTTATTGTAT AGTTTGATAC
  Y
  TTTCTTATTG CTGTGAAAAA TATCT                                      
  
  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	C57BL/6J	CZECHII/EiJ	DBA/2J
ss8808006	WI_WGS_7_108499767	WI	MOUSE	f	SNP	T	C
ss46142107	mCV23653873	ABI	CRAMUS_MOUSE	f	SNP	T		C
ss145794270	ENSMUSSNP6083021	ENSEMBL	ENSEMBL_Sanger	f	SNP			C
SNP Consensus Information
SNP					Consensus Type	C57BL/6J	CZECHII/EiJ	DBA/2J
rs6401809					SNP	T	C	C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr7:118456388 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi19628	CpG island 19628			786 bp distal
Iqck	IQ motif containing K			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Knop1	lysine rich nucleolar protein 1			1481 bp upstream
Rr654563	regulatory region 654563			1563 bp distal
Rr654564	regulatory region 654564			1380 bp distal
Rr654565	regulatory region 654565			677 bp distal
Tssr68731	transcription start site region 68731			1367 bp downstream
Tssr74457	transcription start site region 74457			1470 bp upstream
Tssr74458	transcription start site region 74458			1205 bp upstream
Tssr74459	transcription start site region 74459			1184 bp upstream
Tssr74460	transcription start site region 74460			1151 bp upstream
Tssr74461	transcription start site region 74461			1145 bp upstream
Tssr74462	transcription start site region 74462			1125 bp upstream
Tssr74463	transcription start site region 74463			792 bp upstream