rs39400891 SNP Detail

Summary

• ID
  rs39400891
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr10:8639496 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCTGTACTGC CTGGCTCCCC
  AGATCACAAA CCAATTCTCC CAAAGCCTGT GGCTTCACCG CCCGCCACTG GCATTTCAGG
  GCCACGGACC ACACAAATGG TGGCAGGTGA GTTCTGGATG AAGTACGACC AGCTCTGACA
  TTCAGCAAGC ATCAAGCCTG CAATCCATGA AATGGGTTCA GACATGACCC CTTTCTCAAA
  Y
  AGGAAGGGCA AGGTAGAAAG TGGGGCCCTG TGGCTCTGTC CTGTGGCTCT GTCCTGTGGC
  TCTGTCCTGC GGTTCTGACC CTGTGGCTCT GTCCTGCGGT TCTGTCCTGC GGTTCTGTCC
  TGCGGTTCTG TCCTGTGGCT CTGTCCTGTG ATTCTGTCCT GCGGTTCTGT CCTGCGGCTC
  TGTCCTGCGG CTCTGTCCTG                                            
  
  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	129X1/SvJ	A/J	AKR/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	SM/J	WSB/EiJ
ss50810534	NES14204868	PERLEGEN	MM_PANEL2	f	SNP		T	T	C	T	C	C	C		T	C	C		C
ss146766661	ENSMUSSNP2793835	ENSEMBL	ENSEMBL_Sanger	f	SNP	T	T
ss323245286	CHEV_10_8483530	CHEVERUD	SCREENING_POP	f	SNP									T				T
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	A/J	AKR/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	SM/J	WSB/EiJ
rs39400891					SNP	T	T	T	C	T	C	C	C	T	T	C	C	T	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
ss50810534	NES14204868	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr10:8639496 () rs orientation: forward

Symbol	Name	Function Class
Rr384117	regulatory region 384117	713 bp downstream
Rr427376	regulatory region 427376	401 bp distal
Rr427377	regulatory region 427377	207 bp distal
Sash1	SAM and SH3 domain containing 1	Intron
Tssr3133	transcription start site region 3133	1336 bp upstream
Tssr96640	transcription start site region 96640	1473 bp upstream
Tssr96641	transcription start site region 96641	1449 bp upstream
Tssr96642	transcription start site region 96642	1418 bp upstream
Tssr96643	transcription start site region 96643	1362 bp upstream
Tssr96644	transcription start site region 96644	1266 bp upstream
Tssr96645	transcription start site region 96645	1116 bp upstream