rs27144554 SNP Detail

Summary

• ID
  rs27144554
• 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
  Chr2:38814470 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAATAATCTG ATTAAGAGCT
  AAAACTGCCA CTCAGTTCTT TAAAATGTTC CAATGAATAA TTAATAGCAA ATGCATTGTT
  CTCTGGTTTT CCTTACAATA ATATTCTCAT GTAGAATTGA AAGTGATGGC TGCAATAAAA
  TCTGTCATCT GATAGTAAGC ACAGGTGGGA ACAGAAACTA TTAGCAAACA GGAAGGCATT
  Y
  CCAAAATACA TTACGAGGGA TACCCGATAG ATCTGGAGAC GGAATTTGAA AACCTGCGGG
  TAATCCTTAC ATCAAGAATT ACAACATTTA CAAATTAATA CCAAACCAAA TCTGTGCATA
  AATTTAAAAC GCCAAAACCA TCACCTTTGC TCTTCTACAC AGTGTCTCTT TCTACCCTAA
  CTATATTCCT TTCTTTCCCT                                            
  
  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	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss37385785	NES08745566	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs27144554					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T

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
ss37385785	NES08745566	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:38814470 () rs orientation: forward

Symbol	Name	Function Class
Cpgi11616	CpG island 11616	768 bp proximal
Nr6a1	nuclear receptor subfamily 6, group A, member 1	within coordinates
Rr56789	regulatory region 56789	within coordinates
Rr396935	regulatory region 396935	1852 bp upstream
Tssr17567	transcription start site region 17567	1032 bp upstream
Tssr23832	transcription start site region 23832	1880 bp downstream
Tssr23833	transcription start site region 23833	1901 bp downstream
Tssr23834	transcription start site region 23834	1938 bp downstream