rs3090415 SNP Detail

Summary

• ID
  rs3090415
• Variation Type
  SNP
• Alleles
  A/T

• Created in dbSNP Build
  103
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr5:87841554 (GRCm39)
• SNP Orientation to the Genome
  reverse

• SNP Reference Flanking Sequence

                                              TTTATGTTTG CATTTAAGGT
  CTAAGAGGAT TTCCAGGTTA TTTTCTCCTC CTTATGTTTT TTGGTAAGTT CTTGGAAACT
  AAAGAGCAGA GTGATAAGTT TTATATTTTA TATCATTTTA TATTTCATCC TCCTATATAC
  ACAGCAGAAT AGCAAATTTC ATCAAAGTAT TCACTTACTA CTATGGTTTC ACTGGTTGAC
  W
  GCTTCTTACC AACATGACAC TGGACAAAAT TTATATTTCA AGAAACTTTC ATTTATTTGT
  TTGCCACTGG CACAGATCTG TCTCTTTCCA AAAGCATTTA ACTTTACATC CTATATTATC
  ATGCTGTGAA CAAAAGCAGA AATGAAGTTT TTCTATATTT TATGTGGATA TATTTTTGCT
  TTTGTTACAG GTCAATTTTC                                            
  
  W = A/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/Sv	A	AKR	BALB/cBy	C3H/He	C57BL/6	CAST/EiJ	DBA/2
ss4327320	MUSBCASE-1	WIMOUSESNPS	MITROCHE_POP	f	SNP	A	A	A	A	A	A	T	A
SNP Consensus Information
SNP					Consensus Type	129X1/Sv	A	AKR	BALB/cBy	C3H/He	C57BL/6	CAST/EiJ	DBA/2
rs3090415					SNP	A	A	A	A	A	A	T	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:87841554 () rs orientation: reverse

Symbol	Name	Function Class
Csn2	casein beta	within coordinates
D5Mit12	DNA segment, Chr 5, Massachusetts Institute of Technology 12	167 bp proximal
D5Mit16	DNA segment, Chr 5, Massachusetts Institute of Technology 16	173 bp proximal
D5Mit16.1	DNA segment, Chr 5, Massachusetts Institute of Technology 16.1	273 bp proximal
D5Mit16.2	DNA segment, Chr 5, Massachusetts Institute of Technology 16.2	within coordinates
Tssr1529	transcription start site region 1529	859 bp upstream
Tssr46883	transcription start site region 46883	806 bp upstream
Tssr46884	transcription start site region 46884	819 bp upstream
Tssr46885	transcription start site region 46885	847 bp upstream
Tssr46886	transcription start site region 46886	875 bp upstream
Tssr46887	transcription start site region 46887	892 bp upstream
Tssr46888	transcription start site region 46888	961 bp upstream
Tssr46889	transcription start site region 46889	1010 bp upstream
Tssr46890	transcription start site region 46890	1025 bp upstream
Tssr46891	transcription start site region 46891	1069 bp upstream
Tssr46892	transcription start site region 46892	1073 bp upstream
Tssr46893	transcription start site region 46893	1101 bp upstream
Tssr46894	transcription start site region 46894	1148 bp upstream
Tssr46895	transcription start site region 46895	1171 bp upstream
Tssr46896	transcription start site region 46896	1266 bp upstream
Tssr51613	transcription start site region 51613	1016 bp upstream
Tssr51614	transcription start site region 51614	953 bp upstream
Tssr51615	transcription start site region 51615	897 bp upstream
Tssr51616	transcription start site region 51616	863 bp upstream
Tssr51617	transcription start site region 51617	854 bp upstream
Tssr51618	transcription start site region 51618	835 bp downstream
Tssr51619	transcription start site region 51619	873 bp downstream
Tssr51620	transcription start site region 51620	882 bp downstream
Tssr51621	transcription start site region 51621	891 bp downstream
Tssr51622	transcription start site region 51622	929 bp downstream
Tssr51623	transcription start site region 51623	954 bp downstream
Tssr51624	transcription start site region 51624	972 bp downstream
Tssr51625	transcription start site region 51625	978 bp downstream
Tssr51626	transcription start site region 51626	988 bp downstream
Tssr51627	transcription start site region 51627	1003 bp downstream
Tssr51628	transcription start site region 51628	1044 bp downstream
Tssr51629	transcription start site region 51629	1136 bp downstream
Tssr51630	transcription start site region 51630	1230 bp downstream
Tssr51631	transcription start site region 51631	1279 bp downstream
Tssr51632	transcription start site region 51632	1573 bp downstream