rs6299758 SNP Detail

Summary

• ID
  rs6299758
• 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
  Chr1:146372250 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                    GGAATGTAC CCCTCTTGGA ACACAGCATT
  GTGCCATTTG AGGGGGTATT TTTTTTCTAT TAGTCTATGA TAATGCCTGT AGGATAGGTA
  TTTCTGAAGG AGGGCTGGCT ATGTATGGGT TTGAGAAAGT TCACTAGTCT CTCTGATCTT
  Y
  AGAAGGTGGT CCAGGTCAGC AAGTGTTCAT CTCATCCTAA ACAACTGAAT GGTTGAGAGA
  GGACTTTGGT TAAGTGTGTC TAGTGATTTA GTAGGATCCT ACATACTGAC ATGTCACTAC
  ATGGCCAGGA AGAGTCCCGA GTTTTGAGAG                                 
  
  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	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	SM/J	WSB/EiJ
ss8705675	WI_WGS_1_147368892	WI	MOUSE	f	SNP							T		C
ss45065189	mCV23565590	ABI	CRAMUS_MOUSE	f	SNP		T					T			C
ss49693537	NES12968929	PERLEGEN	MM_PANEL2	f	SNP	C	T	C	T	C	T		C		C	T	C		C	T	C		T
ss145658719	ENSMUSSNP3286101	ENSEMBL	ENSEMBL_Sanger	f	SNP		T								C
ss320018565	CHEV_1_148343642	CHEVERUD	SCREENING_POP	f	SNP													C				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	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	SM/J	WSB/EiJ
rs6299758					SNP	C	T	C	T	C	T	T	C	C	C	T	C	C	C	T	C	C	T

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
ss49693537	NES12968929	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:146372250 () rs orientation: forward

Symbol	Name	Function Class
Brinp3	bone morphogenetic protein/retinoic acid inducible neural specific 3	Intron
Cpgi840	CpG island 840	853 bp proximal
Cpgi841	CpG island 841	1354 bp proximal
Gm29514	predicted gene 29514	1350 bp upstream
Rr372193	regulatory region 372193	188 bp upstream
Rr420040	regulatory region 420040	1742 bp distal
Rr420041	regulatory region 420041	1572 bp distal
Rr420042	regulatory region 420042	814 bp distal
Rr420043	regulatory region 420043	783 bp proximal
Rr420044	regulatory region 420044	1186 bp proximal
Tssr9214	transcription start site region 9214	906 bp downstream
Tssr9215	transcription start site region 9215	876 bp downstream
Tssr9216	transcription start site region 9216	833 bp downstream
Tssr9217	transcription start site region 9217	819 bp downstream
Tssr9218	transcription start site region 9218	805 bp downstream
Tssr9219	transcription start site region 9219	1159 bp upstream