rs240227390 SNP Detail

Summary

• ID
  rs240227390
• Variation Type
  SNP
• Alleles
  A/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
  Chr2:164248752 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTATTATTAA TAATATCGTT
  TATTTTGTTA TATTTTGGGG GGGATAAGAC AGACTCTAAC TCTAGCTCAG GCGGAACCTA
  TACCAATCCT CCTGCCTCAG AGGCCCCATC CCTTCCGTAC TGGGTTTAGG ATTACAAACG
  TGAGCCACCA CACCCAACTT AATTTAACTG TTACTTCTTT CCAGATTATT TATGTATTTT
  W
  TATATGTGTG TGTATTTTGT CTACATGCAT GCCTGTACAC TAGAAGAGGG CATTGGATCC
  CATTACAGAT GGTTGTGAGC CACCATGTGG TTGCTGGGAG TTGAACTCAG AACCTCTGGA
  AGAGCAGCCA GGGCTCTTAA CTGCTGAGCC GTCTCTCCTA CCCCTTGACT GTTATTTTTG
  TTGTTGATGT TGGTGGTGGT                                            
  
  W = A/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	LG/J	SM/J
ss320605786	CHEV_2_164232332	CHEVERUD	SCREENING_POP	f	SNP	T	A
SNP Consensus Information
SNP					Consensus Type	LG/J	SM/J
rs240227390					SNP	T	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:164248752 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi12657	CpG island 12657			1834 bp distal
Cpgi12658	CpG island 12658			1010 bp proximal
Matn4	matrilin 4			1672 bp upstream
Rbpjl	recombination signal binding protein for immunoglobulin kappa J region-like			Intron
				Noncoding-Transcript-Variant
Rr569599	regulatory region 569599			1728 bp distal
Rr569600	regulatory region 569600			1439 bp distal
Rr569601	regulatory region 569601			844 bp proximal
Rr569602	regulatory region 569602			1066 bp proximal
Tssr21580	transcription start site region 21580			1535 bp downstream
Tssr27453	transcription start site region 27453			1975 bp upstream