rs50164408 SNP Detail

Summary

• ID
  rs50164408
• 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
  Chr1:127702344 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCCTGCGTCC CACACGCCCT
  GGTCGCGCTC GCCGGGTGAC CGGGCCTAGT GTCCCGGGAA CATGGCGCCG CTCCCTTTGC
  CGTCTTTTGA TCTCGGGAAA GACACAGAGA AAGCTAGGGC CCGAGCTGCC GTGGCGAGCC
  GGAGAAAGAG GAGATGTGCC GGGGAAGGCG GGCCGGGAGC CCGCGTTGTA TAACCTGTGT
  Y
  TGGGAGCGCG TGATGCGGGA GGGAATAGCA GTGCTTCCCT GGCGAGAGAG GAGGAATCCG
  GGATGAGCAA AGCCAAGGGG CGGCCCCTTC CACTTTCGGA AGTCAGAAAA GGCCTTGAGA
  CGTAGAGAGG TCGCAGATGT TCCACGGAAA GTGTTTTCCG AGGCTTCCGT GCCGGCTCCA
  GGGCGGCTCT GTTGCGCCGG                                            
  
  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	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60798952	NES16471947	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	C	T	T	T	C	T	T	C	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs50164408					SNP	T	T	T	T	T	T	C	T	T	T	C	T	T	C	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
ss60798952	NES16471947	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:127702344 () rs orientation: forward

Symbol	Name	Function Class
2900009J06Rik	RIKEN cDNA 2900009J06 gene	553 bp upstream
Ccnt2	cyclin T2	Intron
Cpgi690	CpG island 690	within coordinates
Rr396250	regulatory region 396250	465 bp downstream
Rr417683	regulatory region 417683	753 bp distal
Rr417684	regulatory region 417684	433 bp distal
Rr417685	regulatory region 417685	257 bp proximal
Tssr8489	transcription start site region 8489	369 bp downstream
Tssr8490	transcription start site region 8490	335 bp downstream