rs38820643 SNP Detail

Summary

• ID
  rs38820643
• Variation Type
  SNP
• Alleles
  A/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
  Chr6:31107289 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GAAGAGCAGG TGTGCATCCA
  TGGAGCAATG CTGGCCACCA CTGGAGCACA GCACGCTGAG AGAACCTCTC ATGTGTCTGT
  ATGCAAATGT AAGAAGACTT AACCGCCGAG GCTGGTGGGC ACTGAGGTGA ACACACAGTG
  TGTTTCTGCC TTGGTGTGAC TGAGGACTGT ACCAAGGTTT TTGGCTGCAA CTAGTACTCC
  W
  AATTGAATTA CAAGGAAGAA AGCACATGAT CTTAGAAAAA CACAAATAGA ATTAAAATGC
  AGAGCGAATA CGTGAGTCTA TTTCACATGT ATGGAATCAG AAAGACTATG GCTTGAAAGG
  TCATCAAGAA GAGAGGGGAG CAATGATCAA ATCCTCCCAT GTTAAGTAAG AAGGTGCTGG
  GAGTACAAGA CTCTTGTGAA                                            
  
  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	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	MSM/Ms	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss51259895	NES13793778	PERLEGEN	MM_PANEL2	f	SNP	T		T	T	T	T	T	A	T	T	T	A		T	T	A	T
ss133096096	ENSMUSSNP4801003	ENSEMBL	ENSEMBL_Sanger	f	SNP		T	T						T				A
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	MSM/Ms	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs38820643					SNP	T	T	T	T	T	T	T	A	T	T	T	A	A	T	T	A	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
ss51259895	NES13793778	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:31107289 () rs orientation: forward

Symbol	Name	Function Class
Gm67790	predicted gene, 67790	within coordinates
Lncpint	long non-protein coding RNA, Trp53 induced transcript	within coordinates
Rr627899	regulatory region 627899	706 bp distal
Tssr60163	transcription start site region 60163	1342 bp downstream
Tssr60164	transcription start site region 60164	1363 bp downstream
Tssr60165	transcription start site region 60165	1470 bp downstream