rs49976439 SNP Detail

Summary

• ID
  rs49976439
• Variation Type
  SNP
• Alleles
  C/G

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr9:72892563 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCCTCAAACA CTATTATGAA
  TTCGACTTTC AAAAGCATCT AGCTCTCTGC CCAAACCCAC CAAGTCGCAG TCTGTCTCTC
  TCGCCATCTT AATCTCTTCG GCAAAAGCAA CTCTTTCCTG ATAGCGAGAA GTCTGGCGAA
  GGCGTAGGGC CCAGTCTTCT TACAGAACCG ACGGAAAGCA ACAGCAAGAC GATCGGAGTC
  S
  CGTAAACTAC AATTTCTGGG GAGGAAGACG GTGGGTGGAA ACCCTCCGTC TTCCAGTGTG
  GCAGCCCGTC TCCGTGGCAA CCGGCTGCAG GCGTGGGAGC CCGGATGTTG TGGAGATCCG
  CAGTCGCTCC GCCCAGCTTC CGGTAGCCTC AGGGGTGCGG GCCGTACGCA TCTTCGGGAG
  TCGTAGTTCT TTTTGCTCGC                                            
  
  S = C/G
  

  
  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	CAST/EiJ	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss61420831	NES16804892	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	G	C	C	G	C	C	G	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs49976439					SNP	C	C	C	C	C	C	G	C	C	G	C	C	G	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
ss61420831	NES16804892	PERLEGEN	MM_PANEL	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr9:72892563 () rs orientation: forward

Symbol	Name	Function Class
Ccpg1	cell cycle progression 1	148 bp upstream
Cpgi22024	CpG island 22024	within coordinates
Gm44503	predicted readthrough transcript (NMD candidate), 44503	within coordinates
Pierce2	piercer of microtubule wall 2	within coordinates
Rr401512	regulatory region 401512	40 bp upstream
Rr682884	regulatory region 682884	within coordinates
Rr682885	regulatory region 682885	78 bp proximal
Rr682886	regulatory region 682886	335 bp proximal
Rr682887	regulatory region 682887	499 bp proximal
Tssr2935	transcription start site region 2935	17 bp downstream
Tssr86066	transcription start site region 86066	110 bp upstream
Tssr86067	transcription start site region 86067	129 bp upstream
Tssr86068	transcription start site region 86068	246 bp upstream
Tssr86069	transcription start site region 86069	287 bp upstream
Tssr90501	transcription start site region 90501	2 bp downstream
Tssr90502	transcription start site region 90502	56 bp downstream
Tssr90503	transcription start site region 90503	63 bp downstream