rs49971381 SNP Detail

Summary

• ID
  rs49971381
• Variation Type
  SNP
• Alleles
  C/T

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

Genome Location and Flanking Sequence

• Location
  Chr1:40123284 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        TCTGGCTCAT GGACTGCAGC ACTACACACA CCATCCTCTT
  CCTCCTTTGG CTGTCTTACC ACTTTTTCCT GAAGCACCAA ACCCGAGCCT GTCTCCGGAC
  Y
  TGGAAATCCT TAACTTACAT TAGCAGTCAC TTTCTCTACA TTAAGCAGCA TGTTCCCAGC
  TTCCAAAGAC TCAGACAAAA AGTTAAAAAC AAAACCAACC                      
  
  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	WSB/EiJ
ss60723904	NES16366409	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	T	C	C	C	T	C	C	C
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	WSB/EiJ
rs49971381					SNP	C	C	C	C	C	C	T	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
ss60723904	NES16366409	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:40123284 () rs orientation: forward

Symbol	Name	Function Class
Cpgi194	CpG island 194	1637 bp proximal
Gm16894	predicted gene, 16894	within coordinates
Il1r2	interleukin 1 receptor, type II	588 bp upstream
Rr29353	regulatory region 29353	1116 bp proximal
Rr396010	regulatory region 396010	1612 bp upstream
Tssr62	transcription start site region 62	586 bp upstream
Tssr6411	transcription start site region 6411	609 bp upstream
Tssr6412	transcription start site region 6412	640 bp upstream
Tssr6413	transcription start site region 6413	651 bp upstream
Tssr6414	transcription start site region 6414	1074 bp upstream
Tssr6415	transcription start site region 6415	1967 bp upstream
Tssr11414	transcription start site region 11414	1699 bp downstream