rs49562960 SNP Detail

Summary

• ID
  rs49562960
• 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
  Chr17:74111849 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCGCTGCTCC CAAGTCAAAT
  CCCCAGGGCT GGGAAAGAAA TGCCTGCGCT TTCCCACAGG ACTCTGGCAG CAGCTTTTTG
  CAGATAGAGT CCGCGCGGCC GCAGAGCGCC TGCCCATAGA CATGGCGGCG CCCTCCTTGG
  CTTCGCGTCG CCCTGACCGT GGAGCTGGCC GGGTTTTGCC AGTTCTCGGG GACTTCCTGC
  W
  CGTCTGGCAT TTAAACGCGC GCCGGGGGCG GCGGGATGCT GCTGCGGATG CGGAGCTGTG
  TGAGCCGCTG CCTACCCGGC GCAGCCTGGG CTCCGCAGTA GCGGAGCTCG AGCATCCTTT
  AGTCATCTAT CTGGGGAGAC CTGGAACTCA GGCTTCGGCT TCCCGGCAGG TTTGTCTTTA
  ATTTCCAAGG TTGCAGTTCT                                            
  
  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
ss60279637	NES15784898	PERLEGEN	MM_PANEL2	f	SNP	T	A	A	A	T	A	A	A	A	A	A	T	T	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
rs49562960					SNP	T	A	A	A	T	A	A	A	A	A	A	T	T	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
ss60279637	NES15784898	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:74111849 () rs orientation: forward

Symbol	Name	Function Class
Cpgi9490	CpG island 9490	within coordinates
Ehd3	EH-domain containing 3	within coordinates
Rr530824	regulatory region 530824	3 bp distal
Rr530825	regulatory region 530825	193 bp distal
Rr530826	regulatory region 530826	1419 bp proximal
Tssr145810	transcription start site region 145810	15 bp downstream
Tssr145811	transcription start site region 145811	within coordinates
Tssr145812	transcription start site region 145812	29 bp upstream
Tssr145813	transcription start site region 145813	48 bp upstream
Tssr145814	transcription start site region 145814	91 bp upstream