rs46648125 SNP Detail

Summary

• ID
  rs46648125
• 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
  Chr4:107226498 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        TTAAAAAAGG AAAAGAAAAG TTGGCTTATT TGTATTTTTC
  ATGTGTATAA GTATTTAACT TGTATATATG TATGTTCATC ACCACGTGTG TGCCTGGTGC
  Y
  TATGGATCCC CCTGGAAGAG TTGCAGATGG TTGTGAGCCA CCATGTGGGT GCTGGGACTG
  AACCCAGGTC CTTTGGAAAA GCCCTCTGCT GAGCCATCT                       
  
  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	DBA/2J	LG/J	SM/J
ss147178176	ENSMUSSNP2677663	ENSEMBL	ENSEMBL_Sanger	f	SNP	T	C
ss321247972	CHEV_4_107041906	CHEVERUD	SCREENING_POP	f	SNP			T	C
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	DBA/2J	LG/J	SM/J
rs46648125					SNP	T	C	T	C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:107226498 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi14540	CpG island 14540			908 bp distal
Ndc1	NDC1 transmembrane nucleoporin			Intron
				Noncoding-Transcript-Variant
Rr367664	regulatory region 367664			1414 bp downstream
Rr596979	regulatory region 596979			1507 bp distal
Rr596980	regulatory region 596980			1912 bp distal
Rr596981	regulatory region 596981			622 bp distal
Rr596982	regulatory region 596982			1440 bp distal
Rr596983	regulatory region 596983			996 bp distal
Tssr38245	transcription start site region 38245			1547 bp downstream
Tssr38246	transcription start site region 38246			1488 bp downstream
Tssr38247	transcription start site region 38247			1263 bp downstream
Tssr38248	transcription start site region 38248			1244 bp downstream
Tssr38249	transcription start site region 38249			1229 bp downstream
Tssr38250	transcription start site region 38250			1217 bp downstream
Tssr38251	transcription start site region 38251			961 bp downstream