rs220999399 SNP Detail

Summary

• ID
  rs220999399
• 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
  Chr3:68600620 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGAGTGGGGT TCCCAGGAGG
  GAGAGATGGC TCTGTGGTTA AGAGAGCTGG CTGCTCTTCC AGAGGTCCAG AGTTTCCACA
  CCCTCATGGT GGCTCACAAT CATGGTAACT CTGATCATAG GGAACCTGTC GTTTTCTCTG
  TGCCTCTGTG GGCACTGAGC ACATGCCACA CAGACATCCA TGCAGGCAGA ACACTCTTGG
  Y
  CATGAAACCT TAAAATGAAG GAGAAACCTT ACGAGAGGTT CCCTAAGGAA TCCCTGCAGA
  AGGGAGAGAT TGTTTTCCTA AGATGAGGTT TGGTGTGGAG GGGATGAGGT ATTCAAAGTT
  AACTAGCCGC TCCTCACTCC TCTGCTGCCA AATACCAGCA CTGGGCTTCG AGACACAATA
  GAATTCGACC TTGTTTTCGT                                            
  
  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
ss358306680	MGP_WTSI_3_68497209	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
rs220999399					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
ss358306680	MGP_WTSI_3_68497209	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:68600620 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13252	CpG island 13252	1837 bp distal
Il12a	interleukin 12a	within coordinates
Rr578059	regulatory region 578059	1925 bp distal
Rr578060	regulatory region 578060	within coordinates
Tssr29479	transcription start site region 29479	1924 bp downstream
Tssr29480	transcription start site region 29480	1917 bp downstream
Tssr29481	transcription start site region 29481	1876 bp downstream
Tssr29482	transcription start site region 29482	1849 bp downstream
Tssr29483	transcription start site region 29483	1776 bp downstream
Tssr29484	transcription start site region 29484	1637 bp downstream
Tssr29485	transcription start site region 29485	1352 bp downstream
Tssr29486	transcription start site region 29486	1330 bp downstream
Tssr29487	transcription start site region 29487	1218 bp downstream
Tssr29488	transcription start site region 29488	1200 bp downstream
Tssr29489	transcription start site region 29489	406 bp upstream
Tssr29490	transcription start site region 29490	452 bp upstream
Tssr29491	transcription start site region 29491	743 bp upstream
Tssr29492	transcription start site region 29492	791 bp upstream
Tssr29493	transcription start site region 29493	808 bp upstream
Tssr33509	transcription start site region 33509	1074 bp upstream