rs50040572 SNP Detail

Summary

• ID
  rs50040572
• Variation Type
  SNP
• Alleles
  A/C

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr13:83875882 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAGAGGTGTA CCTCTCTCTG
  TCCCTTGTCA CACAGCGCGC GTGCACATGC ATTTGTACAA ACATGCATGC TCATACAGCA
  ATACGTTCCA CATTCTTTGC TACTTCCATC TAAATACATG CACCGACACT CTATGCCCTG
  CAGCGTGGCC AGTGTGTTTG TCCTGATCCT GCATAAAAGG GGACAGGTAC GTGCCAGAAC
  M
  CAGGCAAGAA TAAACAGCCA CGCACAATTG AATTGCAGCC AAACTCAGAC ATTCAGCCTG
  CTGAATTAAT CCATTCGGCC AGGTTTCCCC CACCCCAACC GGAATTCTGT AACCAGTTGA
  GGAATTCTGC AATTATTCAC AAAATGTGCT GAAATTTCAC CTCAAGAAAC GTAATCTTGC
  TATATATGGC AAGGTAAGGG                                            
  
  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	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	MSM/Ms	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss61893364	NES17093736	PERLEGEN	MM_PANEL2	f	SNP	A		A	A	A	A	A	C	A	A	A	C		A	A	C	A
ss144778522	ENSMUSSNP872749	ENSEMBL	ENSEMBL_Sanger	f	SNP		A	A										C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	MSM/Ms	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs50040572					SNP	A	A	A	A	A	A	A	C	A	A	A	C	C	A	A	C	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
ss61893364	NES17093736	PERLEGEN	MM_PANEL	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:83875882 () rs orientation: forward

Symbol	Name	Function Class
Cpgi5905	CpG island 5905	232 bp distal
Cpgi5906	CpG island 5906	1783 bp proximal
Gm55122	predicted gene, 55122	within coordinates
Mir9-2hg	Mir9-2 host gene	within coordinates
Rr483279	regulatory region 483279	1326 bp distal
Rr483280	regulatory region 483280	376 bp distal
Rr483281	regulatory region 483281	within coordinates
Rr483282	regulatory region 483282	1227 bp proximal
Rr483283	regulatory region 483283	1728 bp proximal
Rr483284	regulatory region 483284	1832 bp proximal
Tssr120525	transcription start site region 120525	405 bp downstream
Tssr120526	transcription start site region 120526	376 bp downstream
Tssr120527	transcription start site region 120527	1694 bp upstream
Tssr120528	transcription start site region 120528	1712 bp upstream
Tssr123337	transcription start site region 123337	576 bp upstream
Tssr123338	transcription start site region 123338	1369 bp downstream
Tssr123339	transcription start site region 123339	1781 bp downstream
Tssr123340	transcription start site region 123340	1906 bp downstream
Tssr123341	transcription start site region 123341	1918 bp downstream