rs48523939 SNP Detail

Summary

• ID
  rs48523939
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr13:58956737 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTCGGGATGT CGCCCTGGCT
  GAAGTGGCAT GGACCCGCCA TGGCGCGGCT CTGGGGCTTA TGCCTGCTGG TCTTGGGCTT
  CTGGAGGGCC TCTCTCGCCT GCCCGACGTC CTGCAAATGC AGTTCCGCTA GGATTTGGTG
  TACTGAGCCT TCTCCAGGCA TCGTGGCATT CCCGAGGTTG GAACCTAACA GCGTTGACCC
  R
  GAGAACATCA CGGAAATGTG AGTTCCTTTT ACTTTTTCTC CTGTCCCCAC CTCAGGAATC
  AGGCAGGTGT ATGTTTGGGA CAGATGCTGT CCCACACATG GCAAGAAGTC AGAGACCAGA
  GAGATGGGGT ACCTGTCACT TCTCTGTCTG TTTCACTGGC TTACGGATGT CAGTTGGTGA
  AGAGTGGGAC TCTAAAATTC                                            
  
  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	BALB/cByJ	BTBR T<+> Itpr3/J	FVB/NJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss52643907	NES15465417	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G	A	G	G	A	G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	BALB/cByJ	BTBR T<+> Itpr3/J	FVB/NJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs48523939					SNP	G	G	G	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
ss52643907	NES15465417	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:58956737 () rs orientation: forward

Symbol	Name	Function Class
Cpgi5731	CpG island 5731	within coordinates
Ntrk2	neurotrophic tyrosine kinase, receptor, type 2	within coordinates
Rr281494	regulatory region 281494	within coordinates
Tssr120084	transcription start site region 120084	1223 bp downstream
Tssr120085	transcription start site region 120085	1085 bp downstream
Tssr120086	transcription start site region 120086	1040 bp downstream
Tssr120087	transcription start site region 120087	1021 bp downstream
Tssr120088	transcription start site region 120088	637 bp downstream
Tssr120089	transcription start site region 120089	171 bp downstream