rs52248038 SNP Detail

Summary

• ID
  rs52248038
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  128
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:95856093 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCAGCCTCTG AGAGCTCCGC
  CTCGCACAGG TGACCAGGAG GCGCTGGCAG CCTCGGTTCC CAGATTGCTG TCCTTTTGGG
  CCCACACAGC ACCCATGGCG GTGTAGACAC AGCTGAGAGA GATGGCCAAA TTACCTTTGA
  TGTGGGAGCT CTTTTTCATT TTTTCCCCCT CTTCCTCCCC TTCCCATCTT AATACCTTTC
  Y
  TTTTTTAAAG TAAAAAAGAA TTGGCTTTTT TTGTTTACGC TTGATCCATG TGCAGGATTT
  TTTTAGCGCA GATTGCCTCA GTCCTCATTT TTTCCCAGTA TTCCGGTGAG CCAAATGGTT
  TCTAACCTGT TGGAATTTCC TAGATATGAC AGAACTGCCG TCCAGGTGTG ATTTCTAGGC
  CTTTATTGTG CTAGGATAGT                                            
  
  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
ss147069052	ENSMUSSNP3395964	ENSEMBL	ENSEMBL_Sanger	f	SNP	C	T	T
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	A/J	DBA/2J
rs52248038					SNP	C	T	T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:95856093 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
9530080O11Rik	RIKEN cDNA 9530080O11 gene			201 bp upstream
Cpgi14458	CpG island 14458			within coordinates
Hook1	hook microtubule tethering protein 1			Intron
				Noncoding-Transcript-Variant
Rr398349	regulatory region 398349			593 bp downstream
Rr595499	regulatory region 595499			898 bp distal
Rr595500	regulatory region 595500			477 bp distal
Rr595501	regulatory region 595501			within coordinates
Tssr37834	transcription start site region 37834			711 bp downstream
Tssr37835	transcription start site region 37835			536 bp downstream
Tssr37836	transcription start site region 37836			475 bp downstream
Tssr37837	transcription start site region 37837			453 bp downstream
Tssr37838	transcription start site region 37838			430 bp downstream
Tssr42465	transcription start site region 42465			839 bp upstream