rs6238646 SNP Detail

Summary

• ID
  rs6238646
• Variation Type
  SNP
• Alleles
  C/T

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

Genome Location and Flanking Sequence

• Location
  Chr3:40593593 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTATGTGACT CCGTTTCTAA
  AAGGTTCAGA GAGCCTCCAG ATCTATGAGT ACATGGAGGG ACTTGGAGAG AGACCACTGA
  CAAAAGCCAC TGAGACACCA TCCCTTCTCC CATACCTCCC CTGTGAATCT TTTGGTCTAT
  ATTCTTTGTA ATGATGTACA GTAAAAGGGT AACTATAAGA ATTTTCCTGA ATCTGTAAGC
  Y
  GCTCAAATAG ATTAGTCAAG CGCAAGGAGA GAGCTATGGA AACCTCATTT TGCAGGCAGT
  GGACAAGTAA AAACAAGCTG GGTCTCCTGA CTGCCATCTT AAAGCGCAGG GCAGTAAAGA
  GGAGCAGTCT TGGGGAGTGA TCCTCAACAT GTAGGGTTTG AGCTTCAAAA TTTCTGGATT
  AGGGTTCACT GGCTTTCATA                                            
  
  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
ss8644386	WI_WGS_3_40427302	WI	MOUSE	f	SNP	T	C
SNP Consensus Information
SNP					Consensus Type	C57BL/6J	CZECHII/EiJ
rs6238646					SNP	T	C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:40593593 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13108	CpG island 13108	1156 bp proximal
Intu	inturned planar cell polarity protein	Intron
Rr397649	regulatory region 397649	1166 bp upstream
Rr575837	regulatory region 575837	923 bp proximal
Rr575838	regulatory region 575838	1859 bp proximal
Tssr28955	transcription start site region 28955	1307 bp upstream