rs222104629 SNP Detail

Summary

• ID
  rs222104629
• 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
  Chr4:98433758 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTGTGTGGTA TTTCAGTGTT
  GCAAATCGCA CCTGAGGCTT GTCAAATTCT GTGGCTGAGA ATCCTGAGAC CAAGAGTCAT
  TAATTTGCCC CATATCACAA AACAGGGTGC TGATGAAGCA AAGGTAGACC CAGGTGTCAC
  TTTTAAGCTC TGCACCCAGT GCTTACCTCC GTGAACAGAG GACAGAGGTC TTTTGTGCAG
  Y
  CATATCCCCC ATAGTGCCCT GTGCATTCAG GTAGATCTCT GCCTCACCAA TAGATGTCAG
  TGTAGCCAAC AGTACTTACT GACCAAGCAT GGAGCTTGGA GAATGCTCAC TCACTGCCAA
  TAGCAGGCAG CATGAGTAGC ACCCAGCTTT TGCTACATAA ACCCTTTTTA TTTTTGATAA
  TGCAAAATAT AAGAGTACTG                                            
  
  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
ss362546553	MGP_WTSI_4_98212212	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T
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
rs222104629					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T

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
ss362546553	MGP_WTSI_4_98212212	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:98433758 () rs orientation: forward

Symbol	Name	Function Class
Patj	PATJ, crumbs cell polarity complex component	Intron
Rr595752	regulatory region 595752	within coordinates
Rr595753	regulatory region 595753	43 bp proximal
Rr595754	regulatory region 595754	1006 bp proximal
Rr595755	regulatory region 595755	1463 bp proximal
Tssr1238	transcription start site region 1238	1093 bp upstream
Tssr37887	transcription start site region 37887	1110 bp upstream
Tssr37888	transcription start site region 37888	1141 bp upstream
Tssr37889	transcription start site region 37889	1175 bp upstream
Tssr37890	transcription start site region 37890	1189 bp upstream
Tssr37891	transcription start site region 37891	1225 bp upstream
Tssr37892	transcription start site region 37892	1276 bp upstream
Tssr37893	transcription start site region 37893	1376 bp upstream
Tssr37894	transcription start site region 37894	1398 bp upstream