rs239197119 SNP Detail

Summary

• ID
  rs239197119
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:80945979 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATAGAAATTT TATACCACAC
  ATGAAACCAC AATGCTAATG TAGGCATCCT AAAACTGGAA TATTAAATAC CCTGTTTACA
  ATACAAGGGG AGGTTCTCGC TGCTATTTAA GAGGGAAATA TACATGTTTT TCCTACTTTG
  TTATCTATTT ACAATGCAAT TTCACTAGCC AGGTAAGATG ACTGCCAGAG ACAGTTGGGA
  M
  ATGAGGATGG AGTGATATAT ATATACATAT ATACATATAT ATGTATATAT ATATATATAT
  TGCTTCAAGG CTTCACATCT GGATTTCAAC TCTATAAAGG ACACATCTTA AAACAAAGTC
  CAAAAATACA TATGTTCTCT TCATCATTCC TATGCATTGC TGGGCCAGGG TAATAGCATG
  GTGTTTCTTG GTATGCTTGC                                            
  
  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	ZALENDE/EiJ
ss358623214	MGP_WTSI_3_80842594	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	C	A	A	A	A	A	A	A
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	ZALENDE/EiJ
rs239197119					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	C	A	A	A	A	A	A	A

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
ss358623214	MGP_WTSI_3_80842594	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:80945979 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13283	CpG island 13283	845 bp distal
Gm16000	predicted gene 16000	within coordinates
Gm64611	predicted gene, 64611	within coordinates
Pdgfc	platelet-derived growth factor, C polypeptide	Intron
Rr578683	regulatory region 578683	1563 bp distal
Rr578686	regulatory region 578686	1704 bp distal
Rr578687	regulatory region 578687	1000 bp distal
Rr578688	regulatory region 578688	682 bp distal
Rr578689	regulatory region 578689	175 bp proximal
Rr578690	regulatory region 578690	701 bp proximal
Rr578691	regulatory region 578691	888 bp proximal
Tssr29618	transcription start site region 29618	1934 bp downstream
Tssr29619	transcription start site region 29619	1661 bp downstream
Tssr29620	transcription start site region 29620	1596 bp downstream
Tssr29621	transcription start site region 29621	1467 bp downstream
Tssr29622	transcription start site region 29622	1447 bp downstream
Tssr29623	transcription start site region 29623	1281 bp downstream