rs49853180 SNP Detail

Summary

• ID
  rs49853180
• Variation Type
  SNP
• Alleles
  C/T

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

Genome Location and Flanking Sequence

• Location
  Chr1:194358496 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCAGTTAATG ACACCACACC
  CACCTTATCT AGGGCTGGGC TTGGTATACT TTCTTTGACT TTTTCTAAGC AGGGGTGTGG
  ATTTGAGGCA AAATGTTATT GCAAAACCTG TTCGGCTGTA GCTGCTTGCT GGATTTCTCC
  TCTGCTATGC ATAGCTCAGC TCCTCCCAGG TGGGTTGAAA AGTTTAGTAT TGGAGAGAGA
  Y
  TCGTGGGCTA AAGCTTGCAG GCTGACAGAA AGAAGGTTCT TATGCCCTCT CCCCACCCCA
  TCATTTCAAC CCACCATACC CATCCTTAGG GTTACAGTTG TCTCATTCCT CGGGAGCACA
  CTGTGAATAT CTAGGGAGAA TAAAAAATAG AAACTAGACT ATAGTAAGAA CTTTCTAAAC
  TATTTTTGAA ATCTTCATAT                                            
  
  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	A/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	MOLF/EiJ	NOD/ShiLtJ	PWD/PhJ	WSB/EiJ
ss60363408	NES15868982	PERLEGEN	MM_PANEL2	f	SNP	C	C	T	C	C	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	A/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	MOLF/EiJ	NOD/ShiLtJ	PWD/PhJ	WSB/EiJ
rs49853180					SNP	C	C	T	C	C	C	C	C	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
ss60363408	NES15868982	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:194358496 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Gm38036	predicted gene, 38036			814 bp upstream
Gm46202	predicted gene, 46202			within coordinates
Plxna2	plexin A2			Intron
				Noncoding-Transcript-Variant
Rr426679	regulatory region 426679			within coordinates
Rr426680	regulatory region 426680			1579 bp proximal