rs28080650 SNP Detail

Summary

• ID
  rs28080650
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:98433356 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        AAATC ACTGACTTCT GCATTTGTTA
  Y
  GTACAGTTGT AATTAACACA GATAT                                      
  
  Y = C/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	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss38243573	NES09530004	PERLEGEN	MM_PANEL2	f	SNP	C		C	C	C	C	C		C	C	C		C	C	T	C		C
ss45588616	mCV22704711	ABI	CRAMUS_MOUSE	f	SNP		C	C					T	C
ss147088427	ENSMUSSNP1897378	ENSEMBL	ENSEMBL_Sanger	f	SNP		C	C						C
ss321221237	CHEV_4_98211810	CHEVERUD	SCREENING_POP	f	SNP												C					C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs28080650					SNP	C	C	C	C	C	C	C	T	C	C	C	C	C	C	T	C	C	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
ss38243573	NES09530004	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:98433356 () rs orientation: forward

Symbol	Name	Function Class
Patj	PATJ, crumbs cell polarity complex component	Intron
Rr595752	regulatory region 595752	333 bp proximal
Rr595753	regulatory region 595753	445 bp proximal
Rr595754	regulatory region 595754	1408 bp proximal
Rr595755	regulatory region 595755	1865 bp proximal
Tssr1238	transcription start site region 1238	1495 bp upstream
Tssr37887	transcription start site region 37887	1512 bp upstream
Tssr37888	transcription start site region 37888	1543 bp upstream
Tssr37889	transcription start site region 37889	1577 bp upstream
Tssr37890	transcription start site region 37890	1591 bp upstream
Tssr37891	transcription start site region 37891	1627 bp upstream
Tssr37892	transcription start site region 37892	1678 bp upstream
Tssr37893	transcription start site region 37893	1778 bp upstream
Tssr37894	transcription start site region 37894	1800 bp upstream