rs239927588 SNP Detail

Summary

• ID
  rs239927588
• Variation Type
  SNP
• Alleles
  C/G

• 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
  Chr19:3374782 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATCACCACCA CCCCCTTCCT
  AGTCGGTCGA CTCAGGACTC AGTGAGGACC TAAAGCAGAG GACTGTGGTG TGGGGAGGAC
  AGTGCTTGCT CCGGGGCAGT GCAGAGTAGT AGGTAGGTCT GGGCAGCGTC CGCATTCAGA
  GTCCTGGGCT AGACTGGTTT TGCTGCAGCA CCCGGAGCTC TTTTGTCATG TAAATTATTG
  S
  TTTTCTTAAC TAAAGCCTCG CTAGACTTAA CCTTACACTT GAATTTTCTC TTTTATCTAT
  TTATTTACTT TTAAAAAATG AGATAGGATC TCATGTAACA CAGGCTGCCC TCCAGCCTGC
  TCTGTACCCA AGGTTGGTTT TGAACCCCCG ATCTCCTTCC TGCACCCACC CATAAGTGCG
  GTGATTATAG GCGAGCACCA                                            
  
  S = C/G
  

  
  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
ss401617522	MGP_WTSI_19_3324782	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	G	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
rs239927588					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	G	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
ss401617522	MGP_WTSI_19_3324782	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr19:3374782 () rs orientation: forward

Symbol	Name	Function Class
Cpgi10363	CpG island 10363	1966 bp distal
Cpgi10364	CpG island 10364	545 bp distal
Cpgi10365	CpG island 10365	149 bp proximal
Cpt1a	carnitine palmitoyltransferase 1a, liver	within coordinates
Gm58963	predicted gene, 58963	1034 bp upstream
Rr394044	regulatory region 394044	within coordinates
Rr542377	regulatory region 542377	1585 bp distal
Rr542380	regulatory region 542380	1487 bp distal
Rr542381	regulatory region 542381	1268 bp distal
Tssr154176	transcription start site region 154176	1443 bp downstream
Tssr154177	transcription start site region 154177	1429 bp downstream
Tssr154178	transcription start site region 154178	904 bp upstream
Tssr157384	transcription start site region 157384	1061 bp upstream