rs39601478 SNP Detail

Summary

• ID
  rs39601478
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  126
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr6:31089758 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGGAGGAAGC TTGGCGCTTG
  CCAGGTATTG AGGATCTAAC ATTGTTAACA AGAAAAAACA TGCAGAAGAG ACTGACCAAA
  GAAACAAAAA AAAAAACAAC TTACTCCGCT TCCCAGCTGC AAGCAGGTTG TGTTCTGGCT
  GCCCGGCAAC TGCTTCTCCT CAAGGCCCTG GTTTCATTAC AAAAGCTGTG CCTGGACTCA
  Y
  ACAGCCAGGT TTACTGTGGA ACAACACCAA AGCGCCTGCC CGCCTATCGA TGCCACAAGT
  TCACAATTCA TTTCAGAGCT ACTGAAGACA CTTTTGAGAA CAAGGAATCC CCAGCGCAGA
  CAGAGATGAC CTCTGGATGT CACGTGGTCT CACTGCTGTT GTCACTCACT ACACACAGAC
  AGACACAGAC ACACAGAGAC                                            
  
  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	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss51260175	NES13793974	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	C	T	T	T	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	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs39601478					SNP	T	T	T	T	T	T	C	T	T	T	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
ss51260175	NES13793974	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:31089758 () rs orientation: forward

Symbol	Name	Function Class
5330406M23Rik	RIKEN cDNA 5330406M23 gene	1903 bp upstream
Gm56937	predicted gene, 56937	912 bp upstream
Lncpint	long non-protein coding RNA, Trp53 induced transcript	within coordinates
Rr627885	regulatory region 627885	within coordinates
Rr627886	regulatory region 627886	217 bp proximal
Rr627887	regulatory region 627887	753 bp proximal
Rr627888	regulatory region 627888	923 bp proximal
Rr627889	regulatory region 627889	1565 bp proximal
Tssr55448	transcription start site region 55448	947 bp upstream
Tssr60154	transcription start site region 60154	650 bp downstream
Tssr60155	transcription start site region 60155	1979 bp downstream