rs49338201 SNP Detail

Summary

• ID
  rs49338201
• 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
  Chr12:52650033 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGTCCCCGAG CCTCGGTCCT
  GGACCTAATC GGCGCCTGCG CAAAATGTGC ACAGGCAGGC GTTACCTGCG ACCGGCCACC
  CGCAGAGAGT GGACGGGCGT GGCCGCCCAG TCAAACTCGC GGGTCCAGGC CGGGCAGCGC
  CTGCTGGGAA CAGACTGTAC CCCAGGCTCT AGAGGACCTC CCCAAGCTTT TGCTGCGTTC
  Y
  TAGAGTATGG TGCCCATAGT TCTGGGACCG AGTAGGCTAT GCTGGGGAGG GGTCACCTGG
  CGGGTTGGGC ATACTTCAAC AGGCATTGGA CTAGTGGAAC ATAGGTAACA AGTGTCCTGT
  TTTAGTGTGT GGGGGGAGTA GGTGATCGAG TCAGGGCCCT GGTCACTTAG CTGCCACACA
  TTTCTCAAGC TCCCACACAG                                            
  
  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	129X1/SvJ	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
ss52424023	NES15399352	PERLEGEN	MM_PANEL2	f	SNP	C		T	T	T	C	T	C	C	C	C	C	T	C	C	C
ss137738324	ENSMUSSNP3323081	ENSEMBL	ENSEMBL_Sanger	f	SNP		C	T						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	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs49338201					SNP	C	C	T	T	T	C	T	C	C	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
ss52424023	NES15399352	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr12:52650033 () rs orientation: forward

Symbol	Name	Function Class
1700031P21Rik	RIKEN cDNA 1700031P21 gene	928 bp upstream
Cpgi4596	CpG island 4596	within coordinates
Cpgi4597	CpG island 4597	1391 bp proximal
Gm23296	predicted gene, 23296	1235 bp downstream
Gm24859	predicted gene, 24859	538 bp upstream
Gm35239	predicted gene, 35239	1587 bp upstream
Gm59577	predicted gene, 59577	1175 bp downstream
Rr369517	regulatory region 369517	1434 bp upstream
Rr403283	regulatory region 403283	403 bp upstream
Rr403284	regulatory region 403284	1166 bp upstream
Rr466025	regulatory region 466025	943 bp distal
Rr466026	regulatory region 466026	367 bp distal
Rr466027	regulatory region 466027	1104 bp proximal
Rr466028	regulatory region 466028	1633 bp proximal
Tssr116285	transcription start site region 116285	902 bp upstream
Tssr116286	transcription start site region 116286	879 bp upstream