rs49399790 SNP Detail

Summary

• ID
  rs49399790
• Variation Type
  SNP
• Alleles
  C/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
  Chr17:56261688 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTCTGTCCTC CCTGCCCCTC
  TCCACCTGCT CCATCCCGTG GCTCCTCCCT GCCGCCGCCC CCCTACCCCC ACCCACCTCT
  TGCTTTGTCC CTGCAGCTTC CATCCTTTGG CTCTGCTCCC GCCTCACAGG CTTCCTGTCG
  ATGCCCCGGG GCCTTTGCAT TGCTTCCTTC CTTGGCTTTC CTGGGTCTCT GCTCCAATGT
  Y
  GGCTCCTCAG TGAGGCCTCC CCAAAAGTAT ATCATTAAAC ATAAGCAATA GTCACAGTTA
  AGAGAGGATG AAAGCCAAAG GTGGTGTACA AGTCTTTAAT CCCAGAGGTA GGCAGATCTC
  TGAGAATTCA AGGCCAGCCT GATCTACAGA TCATGTTCAA TGCAAGCCAG GGTCACTCCT
  GAGCACCTGT CTCAGAAAAG                                            
  
  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	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
ss62801942	NES17366692	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	C	T	T	T	C	T	T	C	T
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
rs49399790					SNP	T	T	T	T	T	T	C	T	T	T	C	T	T	C	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
ss62801942	NES17366692	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:56261688 () rs orientation: forward

Symbol	Name	Function Class
Cpgi9328	CpG island 9328	1292 bp proximal
Ebi3	Epstein-Barr virus induced gene 3	within coordinates
Gm16712	predicted gene, 16712	83 bp downstream
Rr340009	regulatory region 340009	1487 bp distal
Tssr145247	transcription start site region 145247	1989 bp downstream
Tssr145248	transcription start site region 145248	1963 bp downstream
Tssr145249	transcription start site region 145249	1949 bp downstream
Tssr145250	transcription start site region 145250	1930 bp downstream
Tssr145251	transcription start site region 145251	1906 bp downstream
Tssr145252	transcription start site region 145252	1892 bp downstream
Tssr145253	transcription start site region 145253	1874 bp downstream
Tssr145254	transcription start site region 145254	1850 bp downstream
Tssr145255	transcription start site region 145255	1826 bp downstream
Tssr145256	transcription start site region 145256	782 bp downstream
Tssr145257	transcription start site region 145257	350 bp downstream
Tssr145258	transcription start site region 145258	317 bp downstream