rs36544940 SNP Detail

Summary

• ID
  rs36544940
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  126
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr3:127584719 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTTGCCCCCA CTCTCTCTGA
  AAGATTGGGA ACCAGAAAGG CTGCTGAGTC GGCAGTGCAG GTCTGCTTTG GTGTAAAATT
  CGCGGACAAA TGTCTTCTAA GACACCCGGT GGGGCCATGG CAACTGAGGG AGTTGGGCAA
  GAGAGTAAAA TTATCTTTTG TTTCTTCCAA GTTTCTCTTC CCCTTCTGCC AGCTCGGTGT
  Y
  GGGTGTTTGT CAAGAAGAGA AGCTTTTTTG CAAAAATAAA AACTCCCTTC TTGTAATCAC
  AATCGCTAGC ATATCGACTC AGAGGAACCT CCATTTACAG CAAATTCTAA AAACGTGAGA
  AACCTTGATG GCATGCGTGA CCCCTACCCA GGGGAGCCGT GCAAACTTCC CTTTAAACCG
  TTTGGACACC TGGCTCATTT                                            
  
  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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss51618299	NES14659882	PERLEGEN	MM_PANEL2	f	SNP	T		T	C	T	C	T	T	C	C	C		C	C	C	T		C
ss135871389	ENSMUSSNP656334	ENSEMBL	ENSEMBL_Sanger	f	SNP		T	T						C
ss320956933	CHEV_3_127493988	CHEVERUD	SCREENING_POP	f	SNP												C					T
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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs36544940					SNP	T	T	T	C	T	C	T	T	C	C	C	C	C	C	C	T	T	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
ss51618299	NES14659882	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:127584719 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13800	CpG island 13800	942 bp distal
Cpgi13801	CpG island 13801	121 bp distal
Gm56817	predicted gene, 56817	813 bp upstream
Gm65225	predicted gene, 65225	within coordinates
Rr584860	regulatory region 584860	1148 bp distal
Rr584861	regulatory region 584861	1251 bp distal
Rr584862	regulatory region 584862	824 bp distal
Rr584863	regulatory region 584863	256 bp distal
Rr584864	regulatory region 584864	within coordinates
Tifa	TRAF-interacting protein with forkhead-associated domain	within coordinates
Tssr31594	transcription start site region 31594	1868 bp downstream
Tssr31595	transcription start site region 31595	1856 bp downstream
Tssr31596	transcription start site region 31596	1823 bp downstream
Tssr31597	transcription start site region 31597	1783 bp downstream
Tssr31598	transcription start site region 31598	1760 bp downstream
Tssr31599	transcription start site region 31599	1261 bp downstream
Tssr31600	transcription start site region 31600	1193 bp downstream
Tssr31601	transcription start site region 31601	1141 bp downstream
Tssr31602	transcription start site region 31602	1087 bp downstream
Tssr31603	transcription start site region 31603	1069 bp downstream
Tssr31604	transcription start site region 31604	945 bp downstream
Tssr31605	transcription start site region 31605	431 bp downstream
Tssr31606	transcription start site region 31606	245 bp downstream
Tssr31607	transcription start site region 31607	21 bp downstream
Tssr31608	transcription start site region 31608	36 bp upstream
Tssr31609	transcription start site region 31609	87 bp upstream
Tssr31610	transcription start site region 31610	196 bp upstream
Tssr31611	transcription start site region 31611	304 bp upstream
Tssr35598	transcription start site region 35598	1312 bp upstream
Tssr35599	transcription start site region 35599	1230 bp upstream
Tssr35600	transcription start site region 35600	1202 bp upstream
Tssr35601	transcription start site region 35601	1169 bp upstream
Tssr35602	transcription start site region 35602	852 bp upstream