rs220784644 SNP Detail

Summary

• ID
  rs220784644
• 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
  Chr4:129941608 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCTGGGCACG CAGGGTCCCG
  CCTTGCTCCG CTCACCCGCA GGCTCACCTG GCTGGGGAAG CGGGACGGGC GGGCCCGGGC
  GCAGGGCCAG GCCAGGAGCG CGGCGGTGCA GGCCAATGGC CAGTGCCTCC GCAGCCGCCG
  AACCCTCGCG GTCTCCCTCC TCCTCCAGCC TGGCGGGCCG GCCCAGCTGT GTTCCATTAG
  Y
  CTCTTGGCAG GCCCCCAGCC CCCTGGAACC GCCCTCTTCC CTCTCCAGGA GCGGCCGGCA
  GTTCCTGCAA GCAGGCGTGT GAGTGTGCGC GCACGCTGCG CTGCACTCAG TCTAGAGAAC
  TCAGGACGTG GAAAAGCTGG GGTCAGCGCA GACTGGCAGG GAGAGATCGA GGATCCTCCT
  GTGGGCCGTG GACCCCTGGC                                            
  
  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
ss363242581	MGP_WTSI_4_129725059	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
rs220784644					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
ss363242581	MGP_WTSI_4_129725059	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:129941608 () rs orientation: forward

Symbol	Name	Function Class
Col16a1	collagen, type XVI, alpha 1	30 bp upstream
Cpgi14918	CpG island 14918	1818 bp distal
Cpgi14919	CpG island 14919	within coordinates
Gm12963	predicted gene 12963	within coordinates
Rr600419	regulatory region 600419	1700 bp distal
Rr600421	regulatory region 600421	67 bp distal
Rr600422	regulatory region 600422	within coordinates
Rr600423	regulatory region 600423	36 bp proximal
Tssr1308	transcription start site region 1308	216 bp downstream
Tssr39217	transcription start site region 39217	426 bp downstream
Tssr39218	transcription start site region 39218	41 bp upstream
Tssr39219	transcription start site region 39219	99 bp upstream