rs260599944 SNP Detail

Summary

• ID
  rs260599944
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr2:168606828 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAATGCTAAT TTTCCTTTAA
  GTACTGTAAG CCCCTTCTCC TTGACCACCT GCGGATTTTT TGATCTGCTA ATTATTGCCC
  GGATTTCATT TGCCTTGCTC AAAAAAAAAA AAAAAAAAAC CTGCATTCTC CTACAGACCG
  ACCAAGAGGG ATCCAAAAGC TTCCAAAAGA TTTATCTAAA CTAAGGGTGA TCCCAAAATG
  Y
  AGGCATTAAA GAAATTTTAA AACAAAAACA AAAAACCTCT TCCCAAAACC ACAATCGAGG
  TCCCCCTACA AACACATTTT AAGAACTCTT GGAGAAGATT CCCAAACACT GATGTTGATG
  CAGAAGATGG GGACCCCACA GAGATCACGC GTGTGCGGGT CTCCGGCCTA GCTAACCTCA
  CTCACCAGGT GTGTGTCGCA                                            
  
  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
ss356535949	MGP_WTSI_2_168590408	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
rs260599944					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
ss356535949	MGP_WTSI_2_168590408	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:168606828 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi12778	CpG island 12778			83 bp proximal
Gm14261	predicted gene 14261			1235 bp upstream
Rr374246	regulatory region 374246			within coordinates
Rr571083	regulatory region 571083			266 bp distal
Rr571084	regulatory region 571084			213 bp proximal
Rr571085	regulatory region 571085			451 bp proximal
Rr571086	regulatory region 571086			735 bp proximal
Sall4	spalt like transcription factor 4			Intron
				Noncoding-Transcript-Variant
Tssr21880	transcription start site region 21880			1233 bp upstream
Tssr21881	transcription start site region 21881			1636 bp upstream
Tssr27872	transcription start site region 27872			100 bp upstream
Tssr27873	transcription start site region 27873			337 bp downstream
Tssr27874	transcription start site region 27874			396 bp downstream
Tssr27875	transcription start site region 27875			427 bp downstream
Tssr27876	transcription start site region 27876			462 bp downstream
Tssr27877	transcription start site region 27877			1733 bp downstream