rs253111369 SNP Detail

Summary

• ID
  rs253111369
• Variation Type
  SNP
• Alleles
  C/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
  Chr3:52950022 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAGCACTGAA GCCAAGGAGT
  CAAAATAGGA GGCGTGAACA CATTTGCCCC GGAAAATTAA GACAGAAGGC GTTTTTAGTG
  TTATCGAGTA CTGGGGGTGT GTAACTATAT ATCACCCGAT ATATACACCC GAGTGGTGAA
  TACTGTTAGT TAAATTTACA GTAACTGGGG GTGTGTAACT ATATATCCAA TGTATACACC
  Y
  GAGTGGTGAA TACTGTTAGT TAAATTTACA GTACTTCTGT AATTGTATGA AGTTCCCACT
  ATCATGTTGC TTGGTTGGCA CACTCATCAA GTGATGCCGA GGAGTGGCTA GAAACTAAGT
  GTGAACTTGC AAGCCAAATA AACAAACTAC TGTATGGTCC ATTTTATTTT AATATCCGGA
  ATTATGTCTC CTGCTAGTAA                                            
  
  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	LG/J	SM/J
ss320766602	CHEV_3_52846523	CHEVERUD	SCREENING_POP	f	SNP	T	C
SNP Consensus Information
SNP					Consensus Type	LG/J	SM/J
rs253111369					SNP	T	C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:52950022 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13160	CpG island 13160			506 bp distal
Gm42901	predicted gene 42901			453 bp upstream
Lhfpl6	LHFPL tetraspan subfamily member 6			Intron
				Noncoding-Transcript-Variant
Rr576626	regulatory region 576626			1163 bp distal
Rr576627	regulatory region 576627			1008 bp distal
Rr576628	regulatory region 576628			464 bp distal
Rr576629	regulatory region 576629			134 bp distal
Rr576630	regulatory region 576630			427 bp distal
Rr576631	regulatory region 576631			125 bp distal
Rr576632	regulatory region 576632			1631 bp proximal
Tssr29102	transcription start site region 29102			1022 bp downstream
Tssr29103	transcription start site region 29103			966 bp downstream