rs49598544 SNP Detail

Summary

• ID
  rs49598544
• Variation Type
  SNP
• Alleles
  C/T

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

Genome Location and Flanking Sequence

• Location
  Chr1:55065519 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        GGCTCAGACA TCCTCCCCTA ATTTAAAACT GATTGATCCT
  TTTTTATCAG CGCCGCGTCA CCACCTCCCA AAAATAACTA AGCATAAATT AATGGCTCCG
  Y
  TACCCAGCTT CTCAGAAAGT ACTGGCTTTA CTTCTCTGTA CACATTCCTT TGATTTTCTA
  AGAGAATATT CACACATCTG CTTCCACATC AAACTGTCAA                      
  
  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	CAST/EiJ	FVB/NJ	MOLF/EiJ	NZW/LacJ
ss60735000	NES16375808	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	T	T	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	CAST/EiJ	FVB/NJ	MOLF/EiJ	NZW/LacJ
rs49598544					SNP	T	T	T	T	T	T	T	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
ss60735000	NES16375808	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:55065519 () rs orientation: forward

Symbol	Name	Function Class
Cpgi259	CpG island 259	460 bp proximal
Gm71172	predicted gene, 71172	694 bp upstream
Rr371303	regulatory region 371303	within coordinates
Rr411122	regulatory region 411122	516 bp distal
Rr411123	regulatory region 411123	204 bp proximal
Rr411124	regulatory region 411124	705 bp proximal
Rr411125	regulatory region 411125	1111 bp proximal
Rr411126	regulatory region 411126	1158 bp proximal
Sf3b1	splicing factor 3b, subunit 1	within coordinates
Tssr6707	transcription start site region 6707	within coordinates
Tssr6708	transcription start site region 6708	1237 bp upstream
Tssr11708	transcription start site region 11708	1017 bp downstream
Tssr11709	transcription start site region 11709	1113 bp downstream