rs6325638 SNP Detail

Summary

• ID
  rs6325638
• Variation Type
  SNP
• Alleles
  C/T

• 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
  Chr1:58626057 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTGGATTACG CATAATCTAA
  ACTTTATCCA GGGAATGCAG AAGTGGAGAG GGCTGAAGGG ATCCGATAAG ACCGGGAGAA
  GATCCGGGAT CTAGCTAGGG AGCGCCGCTG CAAGGTTCTT GCTGGGCTGT GTTGAGGCGG
  ATGAAGGATG TCTTGAGAAT TACGATGGTT GTTAAATCCC AGAGATGTTT TAAACCGCCG
  Y
  TACCAGATGC AATGTACTCC TCGCCTCCTG GCTTTTTGGG TTGTATTTGA ATAGGGTAAA
  GAACAGCTCA GACCCGAAAA TACTTAAAAC TAGAAGAAAT AATTGCAACG GTTGCTTCAC
  AAGCTTGTAT TTTAAGTACG GTTTCCCAAA TATAAGTGTT TACGACACAG TGCTTAAGTG
  AAAAAGAGCA AGTCACAAAA                                            
  
  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	C57BL/6J	CAST/EiJ	CZECHII/EiJ	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	PWD/PhJ	WSB/EiJ
ss8731625	WI_WGS_1_59181534	WI	MOUSE	f	SNP							C		T
ss49402923	NES12776455	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C		C		C	C	C	C	T	C
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	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	PWD/PhJ	WSB/EiJ
rs6325638					SNP	C	C	C	C	C	C	C	C	T	C	C	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
ss49402923	NES12776455	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:58626057 () rs orientation: forward

Symbol	Name	Function Class
Cpgi281	CpG island 281	101 bp distal
Hycc2	hyccin PI4KA lipid kinase complex subunit 2	575 bp upstream
Ndufb3	NADH:ubiquinone oxidoreductase subunit B3	Intron
Rr411457	regulatory region 411457	718 bp distal
Rr411458	regulatory region 411458	504 bp distal
Rr411459	regulatory region 411459	679 bp distal
Rr411460	regulatory region 411460	within coordinates
Tssr93	transcription start site region 93	257 bp downstream
Tssr6781	transcription start site region 6781	497 bp downstream
Tssr6782	transcription start site region 6782	452 bp downstream
Tssr6783	transcription start site region 6783	273 bp downstream
Tssr11786	transcription start site region 11786	580 bp upstream