rs46538779 SNP Detail

Summary

• ID
  rs46538779
• 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
  Chr3:19684239 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTCACCAGGC CTCTTCTCAA
  AGGCTTCAGG AGCTGGGCTT GAGTTGCCTG TGCCTCCCAA GTACCGTGTG TGTGCGTGTG
  CGTGCGCGTG TGCGTGTGTG TGTGTATGCG TGTGCCAGAG CAGGGTGTGC AGGCCTCTAG
  CTCTTCACTG TCTTCCTCCG CTTTCCCAGA ACTGGGGTTA TTGGTGTTCA CCACAGTGCT
  Y
  TGCCACTTAA ATCTTATTTG TGAACAATAA CAATTCCTGT AAGTGTATGT GGTAAAAAGA
  GAAAGGAATG TCAAGTCAGA TAGTAGGGAT GGTATCTGCA CCAGAATCCA GACACTTCCT
  GAGGTCAGCA ATCCAGACAG GGAAGTGCAG AGGTTCAGAT GTGAAAATCA GGAGGCTGGG
  TCACAGAGAG GTTAGTCACA                                            
  
  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
ss60376853	NES15884495	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	T	T	T	T	C	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
rs46538779					SNP	T	T	T	T	T	T	T	T	T	T	C	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
ss60376853	NES15884495	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:19684239 () rs orientation: forward

Symbol	Name	Function Class
1700064H15Rik	RIKEN cDNA 1700064H15 gene	1342 bp upstream
Cpgi13003	CpG island 13003	998 bp distal
Cpgi13004	CpG island 13004	4 bp distal
n-TAagc14	nuclear encoded tRNA alanine 14 (anticodon AGC)	1008 bp downstream
n-TYgta1	nuclear encoded tRNA tyrosine 1 (anticodon GTA)	1628 bp downstream
n-TYgta2	nuclear encoded tRNA tyrosine 2 (anticodon GTA)	1205 bp downstream
Rr574008	regulatory region 574008	1409 bp distal
Rr574009	regulatory region 574009	852 bp distal
Rr574010	regulatory region 574010	149 bp proximal
Tssr32702	transcription start site region 32702	1390 bp upstream