rs16817340 SNP Detail

Summary

• ID
  rs16817340
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  123
• Last Updated in dbSNP Build
  123
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr10:42459874 (GRCm39)
• SNP Orientation to the Genome
  reverse

• SNP Reference Flanking Sequence

                                                CCACAATG AACCAACTCA
  CATGGCCATG TCCGGGCGCA CACAATCATA CACAGACACA GCTACCCAAT ATCTTCCACG
  AATCTATCTG TCTGGCATTC TGGAGAGAGG GGAAAAGCGT TTTGAGAGAG CCCCACCACC
  CCTCCCCTCC NCCCTTCCCG TGaaatataa aaattcatat tttttttatt aCAAGAGCGG
  Y
  TCCGTCCTCA CCATCACGCA CGCACGGAGC CGCTTGCCCG TATTCACTCT CAACTCGTCA
  GCTCNGAGAG CGCTTGCATT TTCTTTGGAA GCCGCTTGGA GGTTCATTAA TATCATTAGC
  ATTTAACCCC CTCCCTCTTC CCATCTCCTC CCCGCACATG GCTGACGTCA GACCCCGCCA
  GGAGTTGGGG GAAAAGCTAA GTGGGCCAGG GACGCCCTAT TCCCCTCCCC GCGGCTGCCT
  GTCAGAGCGC TACTGGAGAT ATTACCAGAG ACCCGGCCCG CAGCGACAGG CACAAAGTCA
  CAGGGTAATG AACTTCGGGG ACCCTTCGCC GCTGCGTGCG CGGCTGTCCC CGGAAACTCG
  GATCTGGCCA CCTCTCCCCT TGGAAGATCT CCCAGCAATC TAGTTTCCCC CTCTCGGAA 
  
  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	129/Sv	A/HeJ	A/J	AKR/J	B10.D2-Hc<0> H2 H2-T18/oSnJ	BALB/cByJ	BALB/cJ	BUB	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB	LG/J	LP/J	MOLF	MRL/MpJ	MSM	NZB/BlNJ	NZW/Lac	PERA	SM/J	SPRET/EiJ
ss24772720	Nr2e1_JC10002_2	ROCHEBIO	RPAMM	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129/Sv	A/HeJ	A/J	AKR/J	B10.D2-Hc<0> H2 H2-T18/oSnJ	BALB/cByJ	BALB/cJ	BUB	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB	LG/J	LP/J	MOLF	MRL/MpJ	MSM	NZB/BlNJ	NZW/Lac	PERA	SM/J	SPRET/EiJ
rs16817340					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr10:42459874 () rs orientation: reverse

Symbol	Name	Function Class
Cpgi1484	CpG island 1484	within coordinates
Gm38491	predicted gene, 38491	within coordinates
Nr2e1	nuclear receptor subfamily 2, group E, member 1	246 bp upstream
Rr430584	regulatory region 430584	257 bp distal
Rr430585	regulatory region 430585	33 bp distal
Rr430586	regulatory region 430586	within coordinates
Tssr93098	transcription start site region 93098	67 bp downstream
Tssr97447	transcription start site region 97447	283 bp upstream
Tssr97448	transcription start site region 97448	262 bp upstream
Tssr97449	transcription start site region 97449	239 bp upstream
Tssr97450	transcription start site region 97450	214 bp upstream