rs28080654 SNP Detail

Summary

• ID
  rs28080654
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:98432938 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACATGGTTTT AATCCAGATC
  CTGAGTGAAA TATACTGTTA GTTAATATGA GAACTTAAAA TTCTTTTGAC TTGTAAATGA
  AAGTTTGGAA ATTGTGGAAG ATAGAAGAGA GTAGAGAACT CTACCTTCCA GTGCCCATGC
  TGTGTAGAGC TGTGCCCTGT GCCACTGTCT TGACTGACTG ACTGTTGTAG GGCTGTCTGC
  R
  TGGGAAGAGA CACATCAACA CCTCCAGTCT CCATGGGCTA CATGTGGTTA GATGGCGCAT
  GGCTTCCTGG AATGTTGAGG CTTGTTCTAA AATTGATACA TTGTAATGAA CATAAGCTAC
  TTGGGAAGAA AGAGTGTGTT TGGCTTTTGG TTCCAGAGAA AGAGAGCAGA TAACCAGAAG
  GAAAGCATGG GTTAATCCCA                                            
  
  R = A/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	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss38243577	NES09530101	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G	G	G	G	G	A	G	G	A	G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs28080654					SNP	G	G	G	G	G	G	G	G	G	A	G	G	A	G

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
ss38243577	NES09530101	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:98432938 () rs orientation: forward

Symbol	Name	Function Class
Patj	PATJ, crumbs cell polarity complex component	Intron
Rr595752	regulatory region 595752	751 bp proximal
Rr595753	regulatory region 595753	863 bp proximal
Rr595754	regulatory region 595754	1826 bp proximal
Tssr1238	transcription start site region 1238	1913 bp upstream
Tssr37887	transcription start site region 37887	1930 bp upstream
Tssr37888	transcription start site region 37888	1961 bp upstream
Tssr37889	transcription start site region 37889	1995 bp upstream