rs6389563 SNP Detail

Summary

• ID
  rs6389563
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:108478799 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGTGGTGTTT TAGCCCGTGG
  GAGTAAGTTC CCTAACCACG GGTACCACTG TTGGGGGCCA TATATCATCA TCTATTCCAG
  TCTGAGTCTC TTCAACTTTA CACCTGATAG GTATCTAGCC TGCCAAGATG CCAGGGCCAA
  GACCTCGGAA GGGCCCTAAG ACCAGTGGCC AGGGTGCTGA GACTGCCAAG CAGGTATGGA
  Y
  GTGGTCTCCT TCACCCCGGG TCCACATGGA GTATGGATCT CTAAACATTT GTGGCTAAAG
  AAATGGCTCA GTGGTTAAGA GTGCGAGCTG CTTGCTACTT AGTGGCTTAC GACCACAGCC
  ACCTCCAGTT CTAGGGGATC CAACGCCCTC TTTTGGCCTC CATCGGCACT GCAGCCACAT
  GCTGTACATA CATATATATG                                            
  
  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	C57BL/6J	CZECHII/EiJ
ss8795731	WI_WGS_4_106371550	WI	MOUSE	f	SNP	T	C
SNP Consensus Information
SNP					Consensus Type	C57BL/6J	CZECHII/EiJ
rs6389563					SNP	T	C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:108478799 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cc2d1b	coiled-coil and C2 domain containing 1B			Intron
				Noncoding-Transcript-Variant
				Splice-Site
Cpgi14562	CpG island 14562			929 bp distal
Gm12743	predicted gene 12743			1673 bp upstream
Gm20731	predicted gene, 20731			1327 bp downstream
Rr597202	regulatory region 597202			1764 bp distal
Rr597203	regulatory region 597203			1652 bp distal
Rr597204	regulatory region 597204			565 bp distal
Rr597205	regulatory region 597205			140 bp proximal
Tssr38307	transcription start site region 38307			1608 bp downstream
Tssr38308	transcription start site region 38308			1575 bp downstream