rs28080653 SNP Detail

Summary

• ID
  rs28080653
• Variation Type
  SNP
• Alleles
  A/C

• 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
  Chr4:98432963 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGAAATATAC TGTTAGTTAA
  TATGAGAACT TAAAATTCTT TTGACTTGTA AATGAAAGTT TGGAAATTGT GGAAGATAGA
  AGAGAGTAGA GAACTCTACC TTCCAGTGCC CATGCTGTGT AGAGCTGTGC CCTGTGCCAC
  TGTCTTGACT GACTGACTGT TGTAGGGCTG TCTGCGTGGG AAGAGACACA TCAACACCTC
  M
  AGTCTCCATG GGCTACATGT GGTTAGATGG CGCATGGCTT CCTGGAATGT TGAGGCTTGT
  TCTAAAATTG ATACATTGTA ATGAACATAA GCTACTTGGG AAGAAAGAGT GTGTTTGGCT
  TTTGGTTCCA GAGAAAGAGA GCAGATAACC AGAAGGAAAG CATGGGTTAA TCCCAGGAAG
  CTGAGAACAG AGAGCGTGAA                                            
  
  M = A/C
  

  
  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
ss38243576	NES09530102	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	A	C
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
rs28080653					SNP	C	C	C	C	C	C	C	C	C	C	C	C	A	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
ss38243576	NES09530102	PERLEGEN	MM_PANEL	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:98432963 () rs orientation: forward

Symbol	Name	Function Class
Patj	PATJ, crumbs cell polarity complex component	Intron
Rr595752	regulatory region 595752	726 bp proximal
Rr595753	regulatory region 595753	838 bp proximal
Rr595754	regulatory region 595754	1801 bp proximal
Tssr1238	transcription start site region 1238	1888 bp upstream
Tssr37887	transcription start site region 37887	1905 bp upstream
Tssr37888	transcription start site region 37888	1936 bp upstream
Tssr37889	transcription start site region 37889	1970 bp upstream
Tssr37890	transcription start site region 37890	1984 bp upstream