rs6378040 SNP Detail

Summary

• ID
  rs6378040
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr16:49675775 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CAGCCCTGCG GCTCCAGGGC
  TGCGCGCCTT GGGAGGGAAG ATGGTGAAAG CAGAAGCAGC GCCTACACCG GGAGAGCAGG
  GAGGAGGAGT TGGACTGAGG TTGGGCGGCT CCGAGGTCCA GGGCGAGCTT GGCCAGAGGG
  AGTAGAGAGC AGCGGGGCTG CGCAGGGACG CGTGCCGTGA GTTCCGGTGA GCGTGTGTGT
  Y
  CCATGCTCCC GTCTTTCAGG CCGGCCCAGG ACACGAAGCC GGAAGAGAGC TGGCTGGAGG
  GACGGGGGCC GTGAGCAGAG AGTGCAACCC GCGCAGCCCC GGGGACAGGC TGATTCTTGG
  CGCTCTCCGC CGGAGCCTGC CCAGGGCTGG GTGTGAGGCT GGCGTCACGT CAACGAGCAG
  AGGCGGCCAG GCGGGGCGGA                                            
  
  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	C57BL/6J	CZECHII/EiJ
ss8784191	WI_WGS_16_49843981	WI	MOUSE	f	SNP	C	T
SNP Consensus Information
SNP					Consensus Type	C57BL/6J	CZECHII/EiJ
rs6378040					SNP	C	T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr16:49675775 () rs orientation: forward

Symbol	Name	Function Class
Cd47	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	within coordinates
Cpgi8307	CpG island 8307	within coordinates
Gm4633	predicted gene 4633	366 bp upstream
Gm56621	predicted gene, 56621	113 bp downstream
Gm60685	predicted gene, 60685	825 bp upstream
Rr370104	regulatory region 370104	632 bp upstream
Rr516740	regulatory region 516740	1963 bp distal
Rr516741	regulatory region 516741	904 bp distal
Rr516742	regulatory region 516742	36 bp distal
Rr516743	regulatory region 516743	within coordinates
Rr516744	regulatory region 516744	79 bp proximal
Rr516745	regulatory region 516745	749 bp proximal
Tssr4899	transcription start site region 4899	296 bp downstream
Tssr4900	transcription start site region 4900	146 bp downstream
Tssr4901	transcription start site region 4901	25 bp downstream
Tssr4902	transcription start site region 4902	73 bp upstream
Tssr4903	transcription start site region 4903	355 bp upstream
Tssr138724	transcription start site region 138724	1053 bp downstream
Tssr138725	transcription start site region 138725	868 bp downstream
Tssr138726	transcription start site region 138726	312 bp downstream
Tssr138727	transcription start site region 138727	282 bp downstream
Tssr138728	transcription start site region 138728	52 bp downstream
Tssr138729	transcription start site region 138729	212 bp upstream
Tssr138730	transcription start site region 138730	333 bp upstream
Tssr138731	transcription start site region 138731	660 bp upstream
Tssr138732	transcription start site region 138732	806 bp upstream
Tssr138733	transcription start site region 138733	894 bp upstream
Tssr138734	transcription start site region 138734	1146 bp upstream
Tssr138735	transcription start site region 138735	1184 bp upstream
Tssr141348	transcription start site region 141348	100 bp upstream
Tssr141349	transcription start site region 141349	105 bp downstream
Tssr141350	transcription start site region 141350	420 bp downstream
Tssr141351	transcription start site region 141351	704 bp downstream
Tssr141352	transcription start site region 141352	935 bp downstream