rs28072809 SNP Detail

Summary

• ID
  rs28072809
• Variation Type
  SNP
• Alleles
  A/T

• 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
  Chr4:81249447 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATAAATATAT AAGTAAATAA
  ATATCCATTG TAATAATATT TTGTCATAAA CTATTTAGAT TCCCTAGTAG AAATAAATTA
  CATGTACTTT ATTAAACACT AAATATCTGG AACTTATTGT TGTTAACAGT GTTGCTAAAA
  TCCTTGTTTA AGGAAAGATT CACTAATGTG TAGCAGCTTA TTTTACTTTT ATTTTCCTCA
  W
  AGAAAGCTGC TTACACTTGA AATAAAACTA GTAAGTTCAA CAAGTAGCAA CTGAGTGTTC
  ACCATGTGGG AGCCATTACA CTGGACATGG AATACAGTCA TGAGCTTAGA AATCAATGCA
  GCCAAGCTCC TACTTACTGC TATTCTGGAA GGCTAGTTGC ACCACTGATA AAATTTATTA
  ATAGGTTGGT CAATATCCTC                                            
  
  W = A/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	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
ss38231528	NES09603738	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	T	T	T	A	T	T	A	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/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
rs28072809					SNP	T	T	T	T	T	T	T	T	T	A	T	T	A	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
ss38231528	NES09603738	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:81249447 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Mpdz	multiple PDZ domain crumbs cell polarity complex component			Intron
				Noncoding-Transcript-Variant
Rr594211	regulatory region 594211			605 bp distal
Rr594212	regulatory region 594212			1509 bp distal
Rr594213	regulatory region 594213			1453 bp distal
Rr594214	regulatory region 594214			1257 bp distal
Rr594215	regulatory region 594215			1187 bp distal
Rr594216	regulatory region 594216			1103 bp distal
Rr594217	regulatory region 594217			1047 bp distal
Rr594218	regulatory region 594218			977 bp distal
Rr594219	regulatory region 594219			935 bp distal
Rr594220	regulatory region 594220			823 bp distal
Rr594221	regulatory region 594221			767 bp distal
Rr594222	regulatory region 594222			1199 bp proximal