rs28147117 SNP Detail

Summary

• ID
  rs28147117
• Variation Type
  SNP
• Alleles
  G/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:107225076 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTCGTTACAC CGCGAGCCTG
  TACTTTGGAA CTCCAAGTTC CAGAATGCAA CGCTCCTCTT CCCCTTGGTT CTCAGGGGTC
  GTCGAGACTA CAGTTCCCAG CATGCAGCAC CGTCGCCCTT TGTTTTTGAC GCCCAGATGG
  ACCCTGCTTC GGAAGGACTT TTTGGACTCC AGAGGACGCT TCCTCGAGTC ACAGCCCACC
  K
  GGAGGCATGT GGCTACGGGG AAGTTCTGGC CGGTTGAGTC TGTTCAGGCG AAGCTGCGGA
  GAGATGGTCT GGCGGCTTTG CAGAACCCTG CCCAGGCAGC GTACCGGGCA GCCCCAGCTG
  GGTCCTCCCG GGGCCTTCCT GCCTTTGAAC AGTGGTGGCG GGCGGACACT CTGTCCCCGG
  CACGCTTGAG AGCGGGGGCC                                            
  
  K = G/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
ss38285741	NES09488832	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	G	T	T	T	G	T	T	G	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
rs28147117					SNP	T	T	T	T	T	T	G	T	T	T	G	T	T	G	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
ss38285741	NES09488832	PERLEGEN	MM_PANEL	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:107225076 () rs orientation: forward

Symbol	Name	Function Class
Ndc1	NDC1 transmembrane nucleoporin	mRNA-UTR
Rr367664	regulatory region 367664	within coordinates
Rr596979	regulatory region 596979	85 bp distal
Rr596980	regulatory region 596980	490 bp distal
Rr596981	regulatory region 596981	within coordinates
Rr596982	regulatory region 596982	18 bp distal
Rr596983	regulatory region 596983	405 bp proximal
Tssr38245	transcription start site region 38245	125 bp downstream
Tssr38246	transcription start site region 38246	66 bp downstream
Tssr38247	transcription start site region 38247	125 bp upstream
Tssr38248	transcription start site region 38248	160 bp upstream
Tssr38249	transcription start site region 38249	182 bp upstream
Tssr38250	transcription start site region 38250	196 bp upstream
Tssr38251	transcription start site region 38251	442 bp upstream