rs223853120 SNP Detail

Summary

• ID
  rs223853120
• Variation Type
  SNP
• Alleles
  A/C

• 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
  Chr5:57876575 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCAGCCCCGG AGGAGGGGGG
  TGCCGAGGGG GGTTGTGGTT AGAAGGAGCA GTAGCAGCAG CAGCAAGAGA AGATGCTGAG
  GATGCGGACC ACGGGATGGG CGCGCGGCTG GTGCTTGGGC TGTTGTCTCC TTCTGCCGCT
  CTGCTTCAGC CTGGCCGCCG CCAAGCAGCT GCTCCGGTAC CGGCTGGCCG AGGAGGGCCC
  M
  GCCGACGTGC GGATCGGCAA TGTGGCCTCG GACCTGGGCA TCGTGACCGG CTCCGGCGAG
  GTGACTTTCA GCCTTGAGTC TGGTTCTGAG TATCTGAAGA TTGACAACCT CACCGGCGAG
  CTGAGCACCA GTGAGCGGCG CATCGACCGA GAAAAGCTGC CCCAATGTCA GATGATCTTC
  GACGAGAACG AATGTTTCCT                                            
  
  M = A/C
  

  
  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
ss365063221	MGP_WTSI_5_58110472	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	A	A	C	C	C	C	A	C	A	C	C	C	C	A	C	C	C	C	C	C	C	C	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
rs223853120					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	A	A	C	C	C	C	A	C	A	C	C	C	C	A	C	C	C	C	C	C	C	C	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
ss365063221	MGP_WTSI_5_58110472	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:57876575 () rs orientation: forward

Symbol	Name	Function Class
4932441J04Rik	RIKEN cDNA 4932441J04 gene	1314 bp upstream
Cpgi15875	CpG island 15875	within coordinates
Pcdh7	protocadherin 7	within coordinates
Rr611760	regulatory region 611760	1203 bp distal
Rr611761	regulatory region 611761	126 bp distal
Tssr1483	transcription start site region 1483	1083 bp downstream
Tssr46285	transcription start site region 46285	1996 bp downstream
Tssr46286	transcription start site region 46286	1877 bp downstream
Tssr46287	transcription start site region 46287	1708 bp downstream
Tssr46288	transcription start site region 46288	1678 bp downstream
Tssr46289	transcription start site region 46289	1560 bp downstream
Tssr46290	transcription start site region 46290	1462 bp downstream
Tssr46291	transcription start site region 46291	1129 bp downstream
Tssr46292	transcription start site region 46292	926 bp downstream
Tssr46293	transcription start site region 46293	119 bp downstream
Tssr51039	transcription start site region 51039	269 bp upstream