rs49946390 SNP Detail

Summary

• ID
  rs49946390
• 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
  Chr6:121333954 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GATGAGATCT GTTCTGCCTG
  GGGACGGGCA GAGGCAGGGC AGGATGACCA TTGGAGACTC CCTGGTGCCC CGCTGCCTCT
  GTGTACCCGT GTCAGAAGTG ATTTTTGCCT GCTTGCCTTC CAGGTTGTTT ACTTCACAGC
  CACTTTTCCC TACCTGATGC TGATTATTCT TCTGATCCGG GGTGTCACCC TTCCTGGAGC
  Y
  TACCAGGGCA TCGTCTTCTA CCTGAAGCCA GACTTGCTCC GTCTCAAGGA CCCCCAGGTG
  GGCACCACAA GGGTGTTGTG AACTTATACT GAACCTTCAA AGTCTTCTAT TGCTTTTCCT
  TTGATTTAAG AGAAATAGAG GTTAGCTGGA GAAGAACTGG GGAAGAAATG TTTGAAACGT
  GAATGGAGGT ACCTTGAAAT                                            
  
  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
ss60935894	NES16198214	PERLEGEN	MM_PANEL2	f	SNP	C	C	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	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
rs49946390					SNP	C	C	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
ss60935894	NES16198214	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:121333954 () rs orientation: forward

Symbol	Name	Function Class
Slc6a12	solute carrier family 6 (neurotransmitter transporter, betaine/GABA), member 12	within coordinates
Tssr58613	transcription start site region 58613	579 bp downstream
Tssr58614	transcription start site region 58614	179 bp downstream
Tssr58615	transcription start site region 58615	148 bp downstream
Tssr58616	transcription start site region 58616	118 bp downstream
Tssr58617	transcription start site region 58617	103 bp downstream
Tssr58618	transcription start site region 58618	92 bp downstream
Tssr58619	transcription start site region 58619	69 bp downstream
Tssr58620	transcription start site region 58620	520 bp upstream