rs28039496 SNP Detail

Summary

• ID
  rs28039496
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr2:62451791 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TAGCAGGAGG CACATTCTCC
  ATATCAGGTC AATATGGATT GACAAAAAGT GTCACTGCTC TGAGAAGCAA TATATCTTTT
  TAAAACTGGG GGAAAGAGAA ATCTGGTATC CTAATTAGAC TATTTAAGCC CAAAAAGTAC
  TAGCAATTAC ATTCTGCTAC AGTATGACAT GTCTGCAAAG ATCACAATAC AATTGCCTGT
  R
  CCACCTTTGA AGGGGGATGA ATGATATGGA GATTAAGGTC CCTTGTGACA TCAGCCTAAA
  AGGTAAAAAC AATTTCAGCT CTTGCAGTAT TATTCAATGA GCCAACGTGC ATTTAACCTT
  TCAGCAATTT ACCAAAAGCT CTTATTAAAC GACTTCTACT TGGCTTTGGT ATGCACTTAA
  GGGTCAAACA CTTCACAAAT                                            
  
  R = A/G
  

  
  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	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss38155118	NES09302616	PERLEGEN	MM_PANEL2	f	SNP	G		A	G	G	G	G		G	G	G	A		A	G	G	A		G
ss45254139	mCV25209179	ABI	CRAMUS_MOUSE	f	SNP	G	G	A					G		G
ss146703101	ENSMUSSNP1165582	ENSEMBL	ENSEMBL_Sanger	f	SNP		G	A							G
ss320320719	CHEV_2_62459504	CHEVERUD	SCREENING_POP	f	SNP													A					G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs28039496					SNP	G	G	A	G	G	G	G	G	G	G	G	A	A	A	G	G	A	G	G

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
ss38155118	NES09302616	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:62451791 () rs orientation: forward

Symbol	Name	Function Class
Gm39839	predicted gene, 39839	within coordinates
Ifih1	interferon induced with helicase C domain 1	Intron
Rr557888	regulatory region 557888	1953 bp distal
Rr557889	regulatory region 557889	1115 bp distal
Tssr24306	transcription start site region 24306	704 bp downstream