rs27543080 SNP Detail

Summary

• ID
  rs27543080
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr4:132613209 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGGAAGAGCA GCCAGTGTTC
  TTAACTGCAG AGTCATTTCT CCAGCCCCAA ACTATGCCTT TTCAAGGATG AAAAACTCAA
  GTACCAGGTA ATTGATGAAG AGGTATATTC TCCCATCAGA GAGATCAGGG ACACTCAGGT
  GGAAGCAGAC TGCCACTGCA AACCCCCAAA TACCTGCTTT AGGGCAGATC TTGGGTTTGG
  Y
  CACTGGTCAT ATGGTATAAG CTACACCATG AACCAGCACC ACAAACCATT CTCACCGAAG
  CCTTACCAAT CATTTGAAGA ACTCAGGAGA AAGAGGCTGC TGAGTTGGAA GTTCTCTGTG
  GTAAAATTGA TGCTGTTGGT GCTGGTTAAG AGCACTGACT GCTCTTCGAT ACGTTCTGAG
  TTCAATTCCC AGCAACCACA                                            
  
  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	129S1/SvImJ	CAST/EiJ	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	SM/J	WSB/EiJ
ss37757610	NES09165074	PERLEGEN	MM_PANEL2	f	SNP	C	T	C	T		T	C	T		C
ss321337132	CHEV_4_132441813	CHEVERUD	SCREENING_POP	f	SNP					C				T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	CAST/EiJ	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	SM/J	WSB/EiJ
rs27543080					SNP	C	T	C	T	C	T	C	T	T	C

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
ss37757610	NES09165074	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:132613209 () rs orientation: forward

Symbol	Name	Function Class
Cpgi14976	CpG island 14976	907 bp distal
Gm13033	predicted gene 13033	within coordinates
Gm70413	predicted gene, 70413	within coordinates
Rr601102	regulatory region 601102	1357 bp distal
Rr601103	regulatory region 601103	585 bp distal
Rr601104	regulatory region 601104	1762 bp proximal
Rr601105	regulatory region 601105	1946 bp proximal
Stx12	syntaxin 12	1440 bp upstream
Tssr39425	transcription start site region 39425	1916 bp downstream
Tssr39426	transcription start site region 39426	1346 bp downstream
Tssr43723	transcription start site region 43723	1397 bp upstream
Tssr43724	transcription start site region 43724	1375 bp upstream
Tssr43725	transcription start site region 43725	1108 bp upstream