rs27040539 SNP Detail

Summary

• ID
  rs27040539
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr11:102245356 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        GGAAAATCTG TAACCGACAA AACTTTGTGT TCCCCATCCA
  AGCCTTGACT TGAGCTAGAC AGTATCAAAT AAGTTGACTG GGCACTATCA ATCAGTTGTT
  Y
  GTTCATCCAT TTATCCATAT ATACATCCAA ACATCCATCT ACACATCTAC TGCCCATACA
  ACCATCACCT ACCTACACCC ATCTCCCCAT TCACACATCC                      
  
  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	BALB/cByJ	BTBR T<+> Itpr3/J	NOD/ShiLtJ	NZW/LacJ	WSB/EiJ
ss37280197	NES08547128	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	C	T
SNP Consensus Information
SNP					Consensus Type	BALB/cByJ	BTBR T<+> Itpr3/J	NOD/ShiLtJ	NZW/LacJ	WSB/EiJ
rs27040539					SNP	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
ss37280197	NES08547128	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:102245356 () rs orientation: forward

Symbol	Name	Function Class
Rr245874	regulatory region 245874	1844 bp proximal
Slc4a1	solute carrier family 4 (anion exchanger), member 1	within coordinates
Tssr111044	transcription start site region 111044	1275 bp upstream
Tssr111045	transcription start site region 111045	1241 bp upstream
Tssr111046	transcription start site region 111046	1217 bp upstream
Tssr111047	transcription start site region 111047	1186 bp upstream
Tssr111048	transcription start site region 111048	155 bp upstream
Tssr111049	transcription start site region 111049	1584 bp downstream
Tssr111050	transcription start site region 111050	1636 bp downstream
Tssr111051	transcription start site region 111051	1680 bp downstream
Tssr111052	transcription start site region 111052	1907 bp downstream
Tssr111053	transcription start site region 111053	1964 bp downstream