rs27045530 SNP Detail

Summary

• ID
  rs27045530
• 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
  Chr11:96242535 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGCCTGTGTT TTCCACTAGG
  CCTAGACTAG CGATTGGCGG AGACCGGTCC CGTGACCATG AATTCCCTGC AATTTCGGCG
  GAGTCCTGGG TTTAATAGAG AGAGTCCCCA TACGCTTGTA TTTATCAGCA ATATACAATT
  ATAAAGGCCT AAATTTAAAA AAAAAAGAGA GAGAGCGAAA TCTCCCCCCC CCCGCGAAAT
  Y
  GCTCCATTGC ATAAACCTGG GGGGGGCGGG AGAGGGGGGT CCCTCTGATT CTCCCTCCTG
  ACGCCCCCCC CAGCAGGCCC CCTCCCCCAC CATTGAAAGC CATGAATTTT GAATTTGAGA
  GGGAGATTGG GTTTATAAAC AGCCAGCCAT CGCTCGCCGA GTGTCTGACT TCCTTCCCCG
  CTGTCTTGGA GACATTTCAA                                            
  
  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	A/J	AKR/J	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ
ss37295449	NES08572385	PERLEGEN	MM_PANEL2	f	SNP	T		C	T	T	C	C	T	T	C
ss132677042	ENSMUSSNP1059378	ENSEMBL	ENSEMBL_Sanger	f	SNP		C		T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ
rs27045530					SNP	T	C	C	T	T	C	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
ss37295449	NES08572385	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:96242535 () rs orientation: forward

Symbol	Name	Function Class
Cpgi3656	CpG island 3656	303 bp proximal
Cpgi3657	CpG island 3657	959 bp proximal
Hoxb2	homeobox B2	within coordinates
Hoxb3os	homeobox B3 and homeobox B2, opposite strand	within coordinates
Rr141	regulatory region 141	1261 bp distal
Rr454	regulatory region 454	1489 bp distal
Rr455383	regulatory region 455383	1634 bp distal
Rr455384	regulatory region 455384	1241 bp distal
Rr455385	regulatory region 455385	68 bp distal
Tssr104519	transcription start site region 104519	74 bp downstream
Tssr104520	transcription start site region 104520	160 bp upstream
Tssr104521	transcription start site region 104521	189 bp upstream
Tssr104522	transcription start site region 104522	241 bp upstream
Tssr104523	transcription start site region 104523	265 bp upstream
Tssr104524	transcription start site region 104524	345 bp upstream
Tssr104525	transcription start site region 104525	411 bp upstream
Tssr104526	transcription start site region 104526	1155 bp upstream
Tssr104527	transcription start site region 104527	1177 bp upstream
Tssr104528	transcription start site region 104528	1366 bp upstream
Tssr104529	transcription start site region 104529	1418 bp upstream
Tssr104530	transcription start site region 104530	1446 bp upstream
Tssr104531	transcription start site region 104531	1615 bp upstream
Tssr110331	transcription start site region 110331	1582 bp upstream
Tssr110332	transcription start site region 110332	1510 bp upstream