rs27287880 SNP Detail

Summary

• ID
  rs27287880
• 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
  Chr2:168605679 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TAGAGATTAG AGTGATTACG
  GTAACCTCCC AAATTCATCT CCTATTTGGT TTGGCTTTTT TTTTTTTTTC TTTTTCAAAA
  TCACGTAACC CCAAGAAAGA AACCCAAATG ACGTTAGCTC TTGAGTTGCT TGCTGGGAAG
  TCTCATCACC CACAGTTTCT AAAAGGCAAT TTGAAAAATC AAATGGGCAC TGGATTTAGC
  R
  GCACATTCCT CCAATCTCAG CTTCAGAGGC AAAGACAAGA GCGTGACAAG GCTGGGACAG
  GTTAGAAAGC TGTCATGGTT ACTACACAGA CAGACTGGGG GGGGGGGTGT CACCAAACCA
  AAGCAGCTTC AAGCACCATG GCTAGGCTGT CCCTTACTAA TGAGTACATC CCCCTTGCTC
  TAGAACCAAC AACAAACACC                                            
  
  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	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
ss37504013	NES08851483	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G	G	A	G	G	G	G	G	G	G	G
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	PWD/PhJ	WSB/EiJ
rs27287880					SNP	G	G	G	G	G	G	A	G	G	G	G	G	G	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
ss37504013	NES08851483	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:168605679 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi12778	CpG island 12778			1232 bp proximal
Rr374246	regulatory region 374246			within coordinates
Rr571082	regulatory region 571082			958 bp distal
Rr571083	regulatory region 571083			10 bp proximal
Rr571084	regulatory region 571084			1362 bp proximal
Rr571085	regulatory region 571085			1600 bp proximal
Rr571086	regulatory region 571086			1884 bp proximal
Sall4	spalt like transcription factor 4			Intron
				Noncoding-Transcript-Variant
Tssr27872	transcription start site region 27872			1045 bp downstream
Tssr27873	transcription start site region 27873			1486 bp downstream
Tssr27874	transcription start site region 27874			1545 bp downstream
Tssr27875	transcription start site region 27875			1576 bp downstream
Tssr27876	transcription start site region 27876			1611 bp downstream