rs46540654 SNP Detail

Summary

• ID
  rs46540654
• Variation Type
  SNP
• Alleles
  C/G

• 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
  Chr10:80635100 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACCGGAGCAG GTCCCTTGCT
  GGGATTGAAA GATAACGGTA TCTGCACATA AAAGGGATTT GTCCTGGGAC CAGGCCTCCT
  CCCAGACCAT TACCTTAACA TATACCACGT CTCTGTCCTT ATTGATCGTT CATCGGTAAT
  CTTACGGTAG TCCGTGAGGT TGCGCATCTC CCGTCCCTGC GTCCTGGCCT CCTGTCCCAA
  S
  TTTCACGTGT GAGCCCCTCC AGTCATCGGC ACAACTTTTC ATTTATTTCA GACAGGGTCT
  CACTGCTTAA CTGGGGCTGA CCTGCAACTC GGTGTGGAAA CTTGGCCGAT TTCCAGTTCA
  CAGACATTGC CATGCCTCTG CCTTCTCTCG CATAGTGGGA CTTACAGCAT GAGCCACCAC
  ACTTGGCTGT TTTGATTGGT                                            
  
  S = C/G
  

  
  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	AKR/J	DBA/2J	MOLF/EiJ	NOD/ShiLtJ	PWD/PhJ
ss61290500	NES16901611	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	C	G	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	AKR/J	DBA/2J	MOLF/EiJ	NOD/ShiLtJ	PWD/PhJ
rs46540654					SNP	G	G	G	C	G	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
ss61290500	NES16901611	PERLEGEN	MM_PANEL	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr10:80635100 () rs orientation: forward

Symbol	Name	Function Class
Cpgi1908	CpG island 1908	within coordinates
Plekhj1	pleckstrin homology domain containing, family J member 1	696 bp upstream
Rr435393	regulatory region 435393	1058 bp distal
Rr435394	regulatory region 435394	651 bp distal
Rr435395	regulatory region 435395	524 bp distal
Rr435396	regulatory region 435396	within coordinates
Sf3a2	splicing factor 3a, subunit 2	within coordinates
Tssr94606	transcription start site region 94606	1299 bp downstream
Tssr94607	transcription start site region 94607	1156 bp downstream
Tssr94608	transcription start site region 94608	650 bp downstream
Tssr94609	transcription start site region 94609	624 bp downstream
Tssr94610	transcription start site region 94610	509 bp downstream
Tssr94611	transcription start site region 94611	314 bp downstream
Tssr98507	transcription start site region 98507	1375 bp upstream
Tssr98508	transcription start site region 98508	1316 bp upstream
Tssr98509	transcription start site region 98509	1276 bp upstream
Tssr98510	transcription start site region 98510	1263 bp upstream
Tssr98511	transcription start site region 98511	1050 bp upstream
Tssr98512	transcription start site region 98512	967 bp upstream
Tssr98513	transcription start site region 98513	690 bp upstream
Tssr98514	transcription start site region 98514	368 bp upstream