rs28080649 SNP Detail

Summary

• ID
  rs28080649
• 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
  Chr4:98433432 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTGGTAACCT CCCCAGACAG
  CACCACTAAC TGGGAACCAA TACCTGAGCC TATGGGGGGC ACTCCCCATT CAAACCACTG
  CAACTCTTTA AAGGTATTAA AATCACTGAC TTCTGCATTT GTTATGTACA GTTGTAATTA
  ACACAGATAT TTAAATCATA ACAAGGTATG AATTAAATAC TATGCATGTA AGAGATAGAT
  R
  ACGTTGTAAA CAGGTCTCCA TTAAAGGAGT GGAAATCAAG TAGCATGCTG CTCCAGAGAA
  CGGAAAGAAA GTCACTTGTC TTCTGTAAGG GTGTGTGTGT GTGTGTGTGT GTGTGTGTGC
  CGGGGGTGTG TGGTATTTCA GTGTTGCAAA TCGCACCTGA GGCTTGTCAA ATTCTGTGGC
  TGAGAATCCT GAGACCAAGA                                            
  
  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	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss38243572	NES09530005	PERLEGEN	MM_PANEL2	f	SNP	A	A	A	A	A	A	G	A	A	A	A	A	A	A	A
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
rs28080649					SNP	A	A	A	A	A	A	G	A	A	A	A	A	A	A	A

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
ss38243572	NES09530005	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:98433432 () rs orientation: forward

Symbol	Name	Function Class
Patj	PATJ, crumbs cell polarity complex component	Intron
Rr595752	regulatory region 595752	257 bp proximal
Rr595753	regulatory region 595753	369 bp proximal
Rr595754	regulatory region 595754	1332 bp proximal
Rr595755	regulatory region 595755	1789 bp proximal
Tssr1238	transcription start site region 1238	1419 bp upstream
Tssr37887	transcription start site region 37887	1436 bp upstream
Tssr37888	transcription start site region 37888	1467 bp upstream
Tssr37889	transcription start site region 37889	1501 bp upstream
Tssr37890	transcription start site region 37890	1515 bp upstream
Tssr37891	transcription start site region 37891	1551 bp upstream
Tssr37892	transcription start site region 37892	1602 bp upstream
Tssr37893	transcription start site region 37893	1702 bp upstream
Tssr37894	transcription start site region 37894	1724 bp upstream