rs30399306 SNP Detail

Summary

• ID
  rs30399306
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr3:26385068 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATGGAAGGAA AAAGAGAGAG
  AGAGAGAGAG AGAGAGAGAG AGAGAGAGAG AGAGAGAGAG AGAGAGAGAG AGAGAGAGAG
  AGAGAGAGAG AGAGAGAAAG AGAAAACAGT GGTACAGGCC AGAGCTCATT AGAATAATCA
  CAAATGAATC AAATATGGGA CATATTTCCC TCATTCCAAT AACAGCCTAA CTGCTTCCTC
  Y
  GGAATAAATT ATTCCTCGTT CAAAAACCTC ATCCTAAATA ATTTAAAATT TACTGCAGGT
  TGCTTTAATA TTATGTCTAC TCACAAGGCA TTGTGCTGAG GCTGGCAGGA GTCAGTGGCG
  AACCGTTTAA ACCTTGGGGT GGACTACCCT CTCTTCCCAG GAGAGTTTAT TGCCCAACAA
  TGCATAATCT ATTAGTCGCT                                            
  
  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	129X1/SvJ	A/J	AKR/J	BTBR T<+> Itpr3/J	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ
ss45424487	mCV22681616	ABI	CRAMUS_MOUSE	f	SNP		C	T			C		C
ss51444676	NES14435649	PERLEGEN	MM_PANEL2	f	SNP	C		T	T	C		C	C	C	C	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BTBR T<+> Itpr3/J	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ
rs30399306					SNP	C	C	T	T	C	C	C	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
ss51444676	NES14435649	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:26385068 () rs orientation: forward

Symbol	Name	Function Class
A830092H15Rik	RIKEN cDNA A830092H15 gene	231 bp upstream
Cpgi13015	CpG island 13015	375 bp proximal
Nlgn1	neuroligin 1	within coordinates
Rr77454	regulatory region 77454	within coordinates
Tssr32829	transcription start site region 32829	118 bp downstream
Tssr32830	transcription start site region 32830	581 bp downstream
Tssr32831	transcription start site region 32831	887 bp downstream
Tssr32832	transcription start site region 32832	911 bp downstream
Tssr32833	transcription start site region 32833	935 bp downstream
Tssr32834	transcription start site region 32834	985 bp downstream
Tssr32835	transcription start site region 32835	1015 bp downstream