rs39108090 SNP Detail

Summary

• ID
  rs39108090
• 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
  Chr6:70704051 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AACCTCCTCC CCACCTCCTT
  CTCCTCCTCC TCCCTTTCCT TGGCTTTTAT CATGCTAATA TTTGCAGAAA ATATTCAATA
  AAGTGAGTCT TTGCACTTGA GATCTCTGTC TTTCTTACTA AATGGTAGTA ATCAGTTGTT
  TTTCCAGTTA CCTGGGTTTC TCTTCTAAAG AAGTTAAATG TTTAGTTGCC CTGAAATCCA
  Y
  CACACTTAAA GGATAAATAA AACCCTCCAC TTGCCCTGGT TGGCTGTCCA CTACATGGCA
  GTCCTTTCTA AGGTTCACGA GTACTATTCA TGGCTTATTT CTCTGGGCCA TGGTAGGTTT
  GAGGAGGCAT ACTTCCTAGT TTTCTTCCCC TAAGTCGTCA AAGTCCTGAA GGGGGACAGT
  CTTTACAAGC ACATGTTCTG                                            
  
  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	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss51676644	NES14820453	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	T	C	C	C	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs39108090					SNP	C	C	C	C	C	C	T	C	C	C	C	C	C	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
ss51676644	NES14820453	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:70704051 () rs orientation: forward

Symbol	Name	Function Class
Gm68839	predicted gene, 68839	101 bp upstream
Igk	immunoglobulin kappa chain complex	313 bp downstream
Igkc	immunoglobulin kappa constant	313 bp downstream
Rr158	regulatory region 158	1116 bp distal
Rr150202	regulatory region 150202	within coordinates
Rr399684	regulatory region 399684	1632 bp downstream
Rr399685	regulatory region 399685	1220 bp downstream
Rr399686	regulatory region 399686	256 bp downstream
Tssr1880	transcription start site region 1880	216 bp downstream
Tssr56956	transcription start site region 56956	1234 bp downstream
Tssr56957	transcription start site region 56957	595 bp downstream
Tssr56958	transcription start site region 56958	579 bp downstream
Tssr56959	transcription start site region 56959	561 bp downstream
Tssr56960	transcription start site region 56960	546 bp downstream
Tssr56961	transcription start site region 56961	530 bp downstream
Tssr56962	transcription start site region 56962	518 bp downstream
Tssr56963	transcription start site region 56963	471 bp downstream
Tssr56964	transcription start site region 56964	460 bp downstream
Tssr56965	transcription start site region 56965	448 bp downstream
Tssr56966	transcription start site region 56966	440 bp downstream
Tssr56967	transcription start site region 56967	420 bp downstream
Tssr56968	transcription start site region 56968	390 bp downstream
Tssr56969	transcription start site region 56969	366 bp downstream
Tssr56970	transcription start site region 56970	347 bp downstream
Tssr56971	transcription start site region 56971	335 bp downstream
Tssr56972	transcription start site region 56972	276 bp downstream
Tssr56973	transcription start site region 56973	265 bp downstream
Tssr56974	transcription start site region 56974	235 bp downstream
Tssr56975	transcription start site region 56975	198 bp downstream
Tssr61321	transcription start site region 61321	558 bp upstream
Tssr61322	transcription start site region 61322	410 bp upstream
Tssr61323	transcription start site region 61323	329 bp upstream
Tssr61324	transcription start site region 61324	252 bp upstream
Tssr61325	transcription start site region 61325	219 bp upstream
Tssr61326	transcription start site region 61326	206 bp upstream
Tssr61327	transcription start site region 61327	180 bp upstream
Tssr61328	transcription start site region 61328	102 bp upstream