rs6239619 SNP Detail

Summary

• ID
  rs6239619
• Variation Type
  SNP
• Alleles
  A/T

• 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
  Chr5:87840452 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGTTTTAGAC ACGTTCTCAT
  TAGGCAGCAG ATTATCAGAA CTCACTTTGT TGATCAGCTT GGCCTCAGAA TCTTGGTTAT
  CAGGCTTCAG GCTTTGGTTA CAAGTAACAC TGGTGTACCT CTCACCAGTA GTTAATTATA
  TGATAAATTT TAATGTCCAT AATAAGCTTA CATTAAAACT GAATGATCTT TAGAAAGTTT
  W
  GAAAATCATA ATAAAGACAA GACAACTTAA ATATGCCTAA AGGATTATTT TATTGAAATG
  ACTGGAAAGG AAATAGGTTC TCAAAGAAAA AAAATAGAAA ATCCAATTTT TCACAAACTA
  TTTTGTATAC ATTATTGACT TGCATTTTCA ACTCCATATT GAACACTTAT AAAATTCCTG
  TAATATAACT GAGAAGCATA                                            
  
  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	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss8645366	WI_WGS_5_87296992	WI	MOUSE	f	SNP							A	T
ss51174930	NES13825970	PERLEGEN	MM_PANEL2	f	SNP	A	A	A	A	A	A			A	A	A	A	A	A	T	A
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs6239619					SNP	A	A	A	A	A	A	A	T	A	A	A	A	A	A	T	A

Additional submitted assays for this SNP, where the strain of origin for observed alleles is not specified by the submitter

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	Alleles
ss51174930	NES13825970	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:87840452 () rs orientation: forward

Symbol	Name	Function Class
Csn2	casein beta	26 bp downstream
D5Mit12	DNA segment, Chr 5, Massachusetts Institute of Technology 12	1269 bp proximal
D5Mit16	DNA segment, Chr 5, Massachusetts Institute of Technology 16	1275 bp proximal
D5Mit16.1	DNA segment, Chr 5, Massachusetts Institute of Technology 16.1	1375 bp proximal
D5Mit16.2	DNA segment, Chr 5, Massachusetts Institute of Technology 16.2	1073 bp proximal
Tssr1529	transcription start site region 1529	1961 bp upstream
Tssr46883	transcription start site region 46883	1908 bp upstream
Tssr46884	transcription start site region 46884	1921 bp upstream
Tssr46885	transcription start site region 46885	1949 bp upstream
Tssr46886	transcription start site region 46886	1977 bp upstream
Tssr46887	transcription start site region 46887	1994 bp upstream
Tssr51613	transcription start site region 51613	58 bp downstream
Tssr51614	transcription start site region 51614	145 bp downstream
Tssr51615	transcription start site region 51615	197 bp downstream
Tssr51616	transcription start site region 51616	232 bp downstream
Tssr51617	transcription start site region 51617	240 bp downstream
Tssr51618	transcription start site region 51618	1937 bp downstream
Tssr51619	transcription start site region 51619	1975 bp downstream
Tssr51620	transcription start site region 51620	1984 bp downstream
Tssr51621	transcription start site region 51621	1993 bp downstream