rs6253401 SNP Detail

Summary

• ID
  rs6253401
• Variation Type
  SNP
• Alleles
  A/G

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

Genome Location and Flanking Sequence

• Location
  Chr5:87840715 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGGAAAGGAA ATAGGTTCTC
  AAAGAAAAAA AATAGAAAAT CCAATTTTTC ACAAACTATT TTGTATACAT TATTGACTTG
  CATTTTCAAC TCCATATTGA ACACTTATAA AATTCCTGTA ATATAACTGA GAAGCATATA
  GAGTCCATGG GTCGAATTCA AATGAATGCC ATATAATACA TAGAATAAAT AAAAGAATAC
  R
  TTTTCTTTTC TTCCATGTAG ATTAATTCAG AAATATATCA TTTTTGTAGC ATGATCCAAA
  GGTGAAAAGA TTTGTACATT TCCAGTTTCA GTCAGTTCTG TGAAAGAAAG ATGTATAATC
  ATTTCTGTTG TGTTAAATCA GTGATTCCCA ACATTCCCTT TAATACTGCT CCTCGTGTTT
  TGGTGACCCC CCAACCATAA                                            
  
  R = A/G
  

  
  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
ss8659180	WI_WGS_5_87297255	WI	MOUSE	f	SNP	A	G
SNP Consensus Information
SNP					Consensus Type	C57BL/6J	CZECHII/EiJ
rs6253401					SNP	A	G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:87840715 () rs orientation: forward

Symbol	Name	Function Class
Csn2	casein beta	within coordinates
D5Mit12	DNA segment, Chr 5, Massachusetts Institute of Technology 12	1006 bp proximal
D5Mit16	DNA segment, Chr 5, Massachusetts Institute of Technology 16	1012 bp proximal
D5Mit16.1	DNA segment, Chr 5, Massachusetts Institute of Technology 16.1	1112 bp proximal
D5Mit16.2	DNA segment, Chr 5, Massachusetts Institute of Technology 16.2	810 bp proximal
Tssr1529	transcription start site region 1529	1698 bp upstream
Tssr46883	transcription start site region 46883	1645 bp upstream
Tssr46884	transcription start site region 46884	1658 bp upstream
Tssr46885	transcription start site region 46885	1686 bp upstream
Tssr46886	transcription start site region 46886	1714 bp upstream
Tssr46887	transcription start site region 46887	1731 bp upstream
Tssr46888	transcription start site region 46888	1800 bp upstream
Tssr46889	transcription start site region 46889	1849 bp upstream
Tssr46890	transcription start site region 46890	1864 bp upstream
Tssr46891	transcription start site region 46891	1908 bp upstream
Tssr46892	transcription start site region 46892	1912 bp upstream
Tssr46893	transcription start site region 46893	1940 bp upstream
Tssr46894	transcription start site region 46894	1987 bp upstream
Tssr51613	transcription start site region 51613	177 bp upstream
Tssr51614	transcription start site region 51614	114 bp upstream
Tssr51615	transcription start site region 51615	58 bp upstream
Tssr51616	transcription start site region 51616	24 bp upstream
Tssr51617	transcription start site region 51617	15 bp upstream
Tssr51618	transcription start site region 51618	1674 bp downstream
Tssr51619	transcription start site region 51619	1712 bp downstream
Tssr51620	transcription start site region 51620	1721 bp downstream
Tssr51621	transcription start site region 51621	1730 bp downstream
Tssr51622	transcription start site region 51622	1768 bp downstream
Tssr51623	transcription start site region 51623	1793 bp downstream
Tssr51624	transcription start site region 51624	1811 bp downstream
Tssr51625	transcription start site region 51625	1817 bp downstream
Tssr51626	transcription start site region 51626	1827 bp downstream
Tssr51627	transcription start site region 51627	1842 bp downstream
Tssr51628	transcription start site region 51628	1883 bp downstream
Tssr51629	transcription start site region 51629	1975 bp downstream