rs13492599 SNP Detail

Summary

• ID
  rs13492599
• Variation Type
  SNP
• Alleles
  A/T

• Created in dbSNP Build
  121
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr1:192452413 (GRCm39)
• SNP Orientation to the Genome
  reverse

• SNP Reference Flanking Sequence

                                              CAGCGTTATG CAGTGTGTCT
  GCTCCGTTCA GTGTGGTGTT CTATTATGTA GAGCTGAGCA TCTGCTCCAG TGCCACAGGA
  CGCGGCTCAG GGAAAGCTTT GAAGGGCTGT GCGCTTTCAC TCAGGGTCTA GAAGTCCATT
  CTTTCTGGCT TCTATTCTTC ATGTTCCGAC TTCCCTGTGA TTTCTCTCCC CGTAGGATGG
  W
  TTATGTGCTG GCTAAGGACA GTTCTGATGG ATGTGTTGTT TTGACAGCAC CCCAGAAAGA
  CAAGCTGTGT TCTCCAAGAC CCTTCAAGGC CACCAGCACC AATGAATTGT CTATGCTAGG
  GGCTGGGGTT TGGAGCCTTC TTTGGGGACA AAGGCTTTAC CTGGTTTTTA CTTGGCTTTC
  TCTTGGAGAG TCACCAGCTG                                            
  
  W = A/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/HeJ	A/J	AKR/J	B10.D2-Hc<0> H2 H2-T18/oSnJ	BALB/cByJ	BALB/cJ	C3H/HeJ	CAST/EiJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZB/BlNJ	NZW/LacJ	SPRET/EiJ	WSB/EiJ
ss20407998	PS02189437	PERLEGEN	MM_PANEL	f	SNP		T	T		T	T	T	T		A				T	T	A
ss46771086	NES10640748	PERLEGEN	MM_PANEL2	r	SNP	A			A					A	T	A	T	A		A		A
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/HeJ	A/J	AKR/J	B10.D2-Hc<0> H2 H2-T18/oSnJ	BALB/cByJ	BALB/cJ	C3H/HeJ	CAST/EiJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZB/BlNJ	NZW/LacJ	SPRET/EiJ	WSB/EiJ
rs13492599					SNP	T	T	T	T	T	T	T	T	T	A	T	A	T	T	T	A	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
ss46771086	NES10640748	PERLEGEN	MM_PANEL	r	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:192452413 () rs orientation: reverse

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi1234	CpG island 1234			373 bp proximal
Hhat	hedgehog acyltransferase			Intron
				Noncoding-Transcript-Variant
Rr426393	regulatory region 426393			within coordinates
Rr426394	regulatory region 426394			472 bp proximal
Rr426395	regulatory region 426395			1098 bp proximal
Tssr15828	transcription start site region 15828			1094 bp downstream