rs27045527 SNP Detail

Summary

• ID
  rs27045527
• Variation Type
  SNP
• Alleles
  C/T

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

Genome Location and Flanking Sequence

• Location
  Chr11:96243798 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        AAAGGGGTGC TCCCGATCTC AGCTAAACGG AGGCTGCGTT
  GAGACCTCTC TGATAACATA GGGGTGCTTC CCTCGCAGAT GGCCCCGGAT TGCCAGAATG
  Y
  GGCGGCAGCG GCTCCCGCAG ACTGCGCACG GCCTACACCA ACACGCAACT GCTGGAGCTG
  GAGAAGGAGT TCCACTTCAA TAAGTACCTG TGCCGGCCGC                      
  
  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	AKR/J	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	KK/HlJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss37295446	NES08572388	PERLEGEN	MM_PANEL2	f	SNP	C	T	C	C	C	T	T	C	C	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	AKR/J	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	KK/HlJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs27045527					SNP	C	T	C	C	C	T	T	C	C	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
ss37295446	NES08572388	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:96243798 () rs orientation: forward

Symbol	Name	Function Class
Cpgi3656	CpG island 3656	796 bp distal
Cpgi3657	CpG island 3657	within coordinates
Cpgi3658	CpG island 3658	1492 bp proximal
Hoxb2	homeobox B2	Coding-Synonymous
Hoxb3os	homeobox B3 and homeobox B2, opposite strand	within coordinates
Rr386516	regulatory region 386516	1430 bp upstream
Rr455385	regulatory region 455385	1331 bp distal
Rr455386	regulatory region 455386	1709 bp proximal
Tssr104519	transcription start site region 104519	1337 bp downstream
Tssr104520	transcription start site region 104520	1098 bp downstream
Tssr104521	transcription start site region 104521	1064 bp downstream
Tssr104522	transcription start site region 104522	1004 bp downstream
Tssr104523	transcription start site region 104523	954 bp downstream
Tssr104524	transcription start site region 104524	902 bp downstream
Tssr104525	transcription start site region 104525	834 bp downstream
Tssr104526	transcription start site region 104526	91 bp downstream
Tssr104527	transcription start site region 104527	72 bp downstream
Tssr104528	transcription start site region 104528	103 bp upstream
Tssr104529	transcription start site region 104529	155 bp upstream
Tssr104530	transcription start site region 104530	183 bp upstream
Tssr104531	transcription start site region 104531	352 bp upstream