rs48310643 SNP Detail

Summary

• ID
  rs48310643
• Variation Type
  SNP
• Alleles
  A/T

• 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
  Chr5:129917028 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCGGAGTTCA AATCCCAGCA
  ACCACAAAGT GGCTCACAAC CACCCATAAC GAGATTTGAC ACCCTCTTCT GGTGTGTCTG
  AAGACAACTA CAGTGTACTT ACATATAATA AATAAATAAA TCTTAAAAAA AAAAGAAACT
  ATGAGAAAGA AAATTCTGTA CATAATTCAA GTTTCTGTTG CAGAGAAATT TTCTGCTCAT
  W
  TTTACCAAGG CTCGTCTTCA ATTAAGCGCT ATTTCCATAA TAAAAGAAGA CCATCCTGAC
  TTAATACTAG CCAGTAAGAT CATCTGCATA TCAAAGAACA GGCCTCTAAA GCTGTTGTCC
  TCAACCTGTG GGTTTCAGAC TGTGATTTAG GGACTGAGTT ACTGCTCTTT TCCACGTAAG
  ACTGCTCAAA TGCAGAGATG                                            
  
  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	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
ss60840610	NES16012819	PERLEGEN	MM_PANEL2	f	SNP	A	A	A	A	A	A	A	A	A	A	T	A	A	T	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
rs48310643					SNP	A	A	A	A	A	A	A	A	A	A	T	A	A	T	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
ss60840610	NES16012819	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:129917028 () rs orientation: forward

Symbol	Name	Function Class
Chchd2	coiled-coil-helix-coiled-coil-helix domain containing 2	717 bp upstream
Cpgi16684	CpG island 16684	566 bp distal
Rr399383	regulatory region 399383	678 bp downstream
Rr621372	regulatory region 621372	728 bp distal
Rr621373	regulatory region 621373	227 bp distal
Tssr53498	transcription start site region 53498	1030 bp upstream
Tssr53499	transcription start site region 53499	882 bp upstream
Tssr53500	transcription start site region 53500	758 bp upstream
Tssr53501	transcription start site region 53501	707 bp upstream