rs49489607 SNP Detail

Summary

• ID
  rs49489607
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr13:5915805 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTTCACCCAC TGGGTGCTCA
  TTTCCCATTG TCCCATGCAT CGTGCTATGT TGGGTTGCAC CTCTTTCTTT GTCATGTAAG
  TGCAGGCTCA GGACAGACAC TCCTTGGGCA GCCTGAAGTT TGCTGATGTT GACAGTGGTA
  TTTTGAAGCC TCAGAGTGAG CAAAAGTCTT GGGCTAGTGG GCATTTACTG TGAATACAGC
  Y
  ACAAAAACAA GGGCTTTCTT AACACAGTGC TACTACTTAG ATTAAATTCT GTTTATTTGA
  AACTGGCAGC ACAACATCTG GGATAGGAGG GGAAGGATAA CAGGATAAGT AATTGTAAAC
  TTGTATCTTA CCGAGAGGAT AGTCAAATTC TTGAGAGATG AAGTCAGGGC CCTGAAGAGG
  CAAAGAGCTA GGAGAGGATA                                            
  
  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	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ
ss52612667	NES15506749	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	T	C	C	C	C	C	C
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	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ
rs49489607					SNP	C	C	C	C	C	C	T	C	C	C	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
ss52612667	NES15506749	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:5915805 () rs orientation: forward

Symbol	Name	Function Class
Klf6	Kruppel-like transcription factor 6	within coordinates
Rr403559	regulatory region 403559	965 bp downstream
Tssr118246	transcription start site region 118246	1980 bp downstream
Tssr118247	transcription start site region 118247	1910 bp downstream
Tssr118248	transcription start site region 118248	1309 bp downstream
Tssr118249	transcription start site region 118249	1104 bp downstream
Tssr118250	transcription start site region 118250	1038 bp downstream
Tssr118251	transcription start site region 118251	1003 bp downstream
Tssr118252	transcription start site region 118252	945 bp downstream
Tssr118253	transcription start site region 118253	604 bp upstream
Tssr118254	transcription start site region 118254	631 bp upstream
Tssr118255	transcription start site region 118255	1761 bp upstream
Tssr118256	transcription start site region 118256	1807 bp upstream
Tssr118257	transcription start site region 118257	1889 bp upstream
Tssr118258	transcription start site region 118258	1931 bp upstream
Tssr121319	transcription start site region 121319	1492 bp upstream
Tssr121320	transcription start site region 121320	1455 bp upstream
Tssr121321	transcription start site region 121321	1444 bp upstream
Tssr121322	transcription start site region 121322	1403 bp upstream