rs27045542 SNP Detail

Summary

• ID
  rs27045542
• 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
  Chr11:96190604 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GAATTCGTGC AACAGTGAGT
  GAGACTTCCC GCTGTCCCGT GTCTGTGTGT GTGTGTGTGT GGGGGGGGGT CGGCAAGCAG
  AAAGACTGAA AGTGTCAGCA TCCCCCAACC CCAATTCTCC CATTGGGAAC TAGGTGGGCA
  TCTCAGCAGA TAGAGCAAGA TTGCCCCCCC CCCCGACCTC CAGATCAGTC CTCTTGCCCG
  Y
  AGAAGTTGCA AAGTTTGCAA AGTCCCAGCT GCACAGTAAG GCAGGGGGAA TAAGTGGGCT
  CTCCCTACTT AAGTCAGGCT AGGATTGTTG ATCCGGAAGA GGTTAGGGGA CTCAGTCTCT
  GGTCCTGTAT TCCTTTATGT TCTCCCTAGC TCTTGTCCGG ATCTGAGGGG TGGGGGGTGC
  CCCGCACCCA AAGACCACTC                                            
  
  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	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss37295461	NES08567230	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	C	C	C	C	C	T	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs27045542					SNP	C	C	C	C	C	C	C	C	C	C	C	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
ss37295461	NES08567230	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:96190604 () rs orientation: forward

Symbol	Name	Function Class
Cpgi3641	CpG island 3641	within coordinates
Cpgi3642	CpG island 3642	769 bp proximal
Hoxb5os	homeobox B5 and homeobox B6, opposite strand	within coordinates
Hoxb6	homeobox B6	within coordinates
Rr455361	regulatory region 455361	597 bp distal
Rr455362	regulatory region 455362	726 bp proximal
Tssr3658	transcription start site region 3658	513 bp downstream
Tssr104480	transcription start site region 104480	1008 bp downstream
Tssr104481	transcription start site region 104481	980 bp downstream
Tssr104482	transcription start site region 104482	957 bp downstream
Tssr104483	transcription start site region 104483	695 bp downstream
Tssr104484	transcription start site region 104484	676 bp downstream
Tssr104485	transcription start site region 104485	649 bp downstream
Tssr104486	transcription start site region 104486	630 bp downstream
Tssr104487	transcription start site region 104487	556 bp downstream
Tssr104488	transcription start site region 104488	526 bp downstream