rs246681404 SNP Detail

Summary

• ID
  rs246681404
• Variation Type
  SNP
• Alleles
  A/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
  Chr13:23945227 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CAGGCGGCGG ATGGCGGGCT
  TGGTGATGCC CTGGATGTTA TCGCGGAGAA CCTTACGGTG GCGCTTAGCG CCGCCTTTGC
  CCAGGCCTTT TCCTCCCTTG CCGCGACCCG ACATGTCTTA GGAAGAATGG AAAATGGAGT
  CAGAGCTGAG AGTCGGTCCT TTATATAGCT GCTTGGCCTT GATCTCCCAC CCCCAACAGA
  W
  TCACACAAAC GAAAACCCGC CCGCCGGACG GTGACGTCAT AAACCCCGCC AATAAGACCT
  GGCGGGAAAG AACCGAAAGC GCCCGGGCGG GAAAGTGACG TCACAAATCC CTCCCATCAA
  CCATGCCCCG AAAGCGCGCC GGCGGGAAAA TGACATCACA AACCCCGCCC CTCAGCCAAG
  ACCCGAAAGC GCGCCGGCGG                                            
  
  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	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
ss387989662	MGP_WTSI_13_23853113	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	A	A
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
rs246681404					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	A	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
ss387989662	MGP_WTSI_13_23853113	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:23945227 () rs orientation: forward

Symbol	Name	Function Class
Cpgi5376	CpG island 5376	within coordinates
Gm61378	predicted gene, 61378	204 bp upstream
Gm61381	predicted gene, 61381	1347 bp downstream
H3c1	H3 clustered histone 1	641 bp downstream
H4c1	H4 clustered histone 1	within coordinates
Rr388132	regulatory region 388132	within coordinates
Rr475945	regulatory region 475945	within coordinates
Rr475946	regulatory region 475946	1132 bp proximal
Tssr121749	transcription start site region 121749	56 bp upstream
Tssr121750	transcription start site region 121750	28 bp upstream
Tssr121751	transcription start site region 121751	8 bp upstream
Tssr121752	transcription start site region 121752	1118 bp downstream
Tssr121753	transcription start site region 121753	1134 bp downstream