rs48820201 SNP Detail

Summary

• ID
  rs48820201
• 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
  Chr4:107226721 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        TTTCTTGTTT TTCCTTTCCC TGCCATCCAT TTAAAATTGC
  AGATGGGAAT TGTGACTGGT ATTAAAAAAA AAGTCTAATC TAGCTAGTTG TAGCACATTC
  Y
  TATAATCCAA CTCTTAGGAG AGTGTAGCAA GAGGCTCCAG AGATCCTGGC TAGCCTGGGA
  TACATATAGA GAAACTATTT CAAAAGCAAT AAGAAAAAG                       
  
  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	129X1/SvJ	A/J	DBA/2J	LG/J	SM/J
ss147178185	ENSMUSSNP274052	ENSEMBL	ENSEMBL_Sanger	f	SNP	T	T	C
ss321247974	CHEV_4_107042129	CHEVERUD	SCREENING_POP	f	SNP				T	C
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	A/J	DBA/2J	LG/J	SM/J
rs48820201					SNP	T	T	C	T	C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:107226721 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi14540	CpG island 14540			1131 bp distal
Ndc1	NDC1 transmembrane nucleoporin			Intron
				Noncoding-Transcript-Variant
Rr367664	regulatory region 367664			1637 bp downstream
Rr596979	regulatory region 596979			1730 bp distal
Rr596981	regulatory region 596981			845 bp distal
Rr596982	regulatory region 596982			1663 bp distal
Rr596983	regulatory region 596983			1219 bp distal
Tssr38245	transcription start site region 38245			1770 bp downstream
Tssr38246	transcription start site region 38246			1711 bp downstream
Tssr38247	transcription start site region 38247			1486 bp downstream
Tssr38248	transcription start site region 38248			1467 bp downstream
Tssr38249	transcription start site region 38249			1452 bp downstream
Tssr38250	transcription start site region 38250			1440 bp downstream
Tssr38251	transcription start site region 38251			1184 bp downstream