rs28147114 SNP Detail

Summary

• ID
  rs28147114
• 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
  Chr4:107225860 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGGCTGCTCT GTGTTGAAAG
  AATGTGGCCT TAGCAGACTC TGGGGTTGGG GAGACGCTAA ACCGAGCATA TATTCATGGT
  TTATTTAAGA CAGCCTACTC TAGGCTTCAG CTAAGGAGAG CTCACCTCCT TGCATCCATT
  CTGTGTTTGG GGGGTGGGGA GTGGGCGCAA GGAGAGAAGT AAAGAGAATG CAAATAGTAG
  K
  GGTTCATGTT AATAGCCTAA ATGGAGAAGC AGGATTTGCA TGTCTGAGTT AGAGTAACTG
  ACTTCTTGAT TGAAGAGTTG TGTTTAATTT TAGGTTTTGG GTTGGAGGAT AGTTACCAGC
  ATCGTTTGGT CAGTAGTGCT TCTACCCGTC TGCATCACAG CCTTTATAGT CTTAAGCAGC
  ATCAATTTAT TCCACCCTAT                                            
  
  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
ss38285738	NES09488835	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	T	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
rs28147114					SNP	T	T	T	T	T	T	T	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
ss38285738	NES09488835	PERLEGEN	MM_PANEL	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:107225860 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi14540	CpG island 14540			270 bp distal
Ndc1	NDC1 transmembrane nucleoporin			Intron
				Noncoding-Transcript-Variant
Rr367664	regulatory region 367664			776 bp downstream
Rr596979	regulatory region 596979			869 bp distal
Rr596980	regulatory region 596980			1274 bp distal
Rr596981	regulatory region 596981			within coordinates
Rr596982	regulatory region 596982			802 bp distal
Rr596983	regulatory region 596983			358 bp distal
Tssr38245	transcription start site region 38245			909 bp downstream
Tssr38246	transcription start site region 38246			850 bp downstream
Tssr38247	transcription start site region 38247			625 bp downstream
Tssr38248	transcription start site region 38248			606 bp downstream
Tssr38249	transcription start site region 38249			591 bp downstream
Tssr38250	transcription start site region 38250			579 bp downstream
Tssr38251	transcription start site region 38251			323 bp downstream