rs6340196 SNP Detail

Summary

• ID
  rs6340196
• Variation Type
  SNP
• Alleles
  A/C

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr5:33785695 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTCCAGTCCA AGCCACAAGC
  TCACACACCA GAGGAAAAAG TTCCAGAACC AAGATCTAAG CTCCAGGGAC AGCAAGCAGA
  ATCATTTATC AGGCCATGAG AAGGGACCGG GCTTGCTATG CTCACTAAAC AAAGAGACGT
  AAAGAGGAGA ACAGGTGCCA GAGGAGTCAT CAGAAAGAAC GACCAACCAC TAACCAAAAC
  M
  GCAAAGTCCA TCTACTCTTC CTAATCAATT TCAATTTCCA CCTTGGCGTA ATATTCAGAA
  TTTGGAAAAA CTATCCTCGG TCCTACCTTG TTCTGAGATG CTGAACTTCC CTTCCAAGAC
  CCACTTTCCT AAGATGACCA AATATGTATT TGAAGCAGCA GCATCAGTGA GCACAAGTCA
  AATTTCTTAA TGTAAAAACT                                            
  
  M = A/C
  

  
  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	C57BL/6J	CAST/EiJ	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss8746227	WI_WGS_5_32328044	WI	MOUSE	f	SNP							A		C
ss51694550	NES14742071	PERLEGEN	MM_PANEL2	f	SNP	A	A	A	A	A	A		C		A	A	A	C	A	A	C	A
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs6340196					SNP	A	A	A	A	A	A	A	C	C	A	A	A	C	A	A	C	A

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
ss51694550	NES14742071	PERLEGEN	MM_PANEL	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:33785695 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi15737	CpG island 15737			479 bp proximal
Fam53a	family with sequence similarity 53, member A			Intron
				Noncoding-Transcript-Variant
Gm9903	predicted gene 9903			1574 bp upstream
Rr399034	regulatory region 399034			1287 bp upstream
Rr609574	regulatory region 609574			77 bp distal
Rr609575	regulatory region 609575			356 bp proximal
Rr609576	regulatory region 609576			551 bp proximal
Rr609577	regulatory region 609577			1261 bp proximal
Rr609578	regulatory region 609578			1585 bp proximal
Tssr45824	transcription start site region 45824			1564 bp upstream
Tssr45825	transcription start site region 45825			1598 bp upstream
Tssr50608	transcription start site region 50608			1184 bp downstream
Tssr50609	transcription start site region 50609			1226 bp downstream