rs242419409 SNP Detail

Summary

• ID
  rs242419409
• Variation Type
  SNP
• Alleles
  C/T

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

Genome Location and Flanking Sequence

• Location
  Chr5:31204940 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTCACCCTCT TCCCCCTTTG
  AAATATAAGG GAACACCTGC AGGGCCAACT GTCACCAATA TCTAGGGCTT AATATTCCTC
  AAGATCTGAA TGGCCTTTCT CATTAAAACA AGATATCCCA CCAGCTAAAT GTATTGATAA
  ATGCAAATTC AGGATTTCCA GGCAGATACC TGGAGCCTGT GGAATGGAAG CATTGGCAGG
  Y
  TAATTGAGAT GAGCTCTAAT TGTCTCTAGT TACCTTTTGA GGAGTCGTCA CCCAGAGCAA
  TAGCTGTCCC CTTAGGTGTG ATGGGTCTCT CCCAGCGCCC TTCCAGTCAG ACCTGCTGCT
  GTTCTGCTTG CCTTGCGTCG GTGGTTCGGC CAGGGCTACC AAAGTTCCTA CGTTCTTTCC
  GAAACCAGCA TTGGTTTTTC                                            
  
  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	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss364434608	MGP_WTSI_5_31349969	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs242419409					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C

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
ss364434608	MGP_WTSI_5_31349969	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:31204940 () rs orientation: forward

Symbol	Name	Function Class
Atraid	all-trans retinoic acid induced differentiation factor	1044 bp upstream
Cpgi15696	CpG island 15696	139 bp proximal
D5Jcs306	DNA segment, Chr 5, John C. Schimenti 306	1320 bp distal
Rr125009	regulatory region 125009	within coordinates
Rr399020	regulatory region 399020	858 bp upstream
Slc5a6	solute carrier family 5 (sodium-dependent vitamin transporter), member 6	within coordinates
Tssr45658	transcription start site region 45658	1031 bp upstream
Tssr45659	transcription start site region 45659	1433 bp upstream
Tssr50520	transcription start site region 50520	262 bp downstream
Tssr50521	transcription start site region 50521	283 bp downstream
Tssr50522	transcription start site region 50522	402 bp downstream
Tssr50523	transcription start site region 50523	418 bp downstream
Tssr50524	transcription start site region 50524	640 bp downstream