rs249569212 SNP Detail

Summary

• ID
  rs249569212
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr4:48046465 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTGGAGGAGC TCAGCAAAGA
  GGGTGTAATT GTAGGAATGC GGCTTATTGT ATTGAAATGA GCCCCGGGCT CCACTAGGCA
  CGTCTGCCTG GCGTCGCCGA CTTGCTGGTT TACACTTTTC CCCATGGAGG TAATCGGGTG
  TAATTGCCGA CTCTCGCGCC CCGACACGCG TGGGGACCAG GTCCCTCTTC TCCAGGCCTT
  R
  GCTGGTGTGG GAAAGGCTTG TGTTACTTTT CAATGAGCTT TCGGAGAAGT TGCTCCGAGT
  GTTTTCTTCT TAGTAGAAAG GAAAGTTCTC GATGGTGAAA AGGGGAGCCG AGCAGCGGAG
  CGCAGCCGGC GGAGACTGGC TTTCAAAGGC ACCTCTCGAA CCTGTTGGAG GCTTCCGGCA
  GTCATGCGGG AGCTCATGAG                                            
  
  R = A/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
ss361430086	MGP_WTSI_4_48059337	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G
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
rs249569212					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G

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
ss361430086	MGP_WTSI_4_48059337	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:48046465 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi14278	CpG island 14278			within coordinates
Cpgi14279	CpG island 14279			822 bp proximal
Gm68858	predicted gene, 68858			467 bp downstream
Nr4a3	nuclear receptor subfamily 4, group A, member 3			Intron
				Noncoding-Transcript-Variant
Rr376438	regulatory region 376438			1248 bp downstream
Rr591927	regulatory region 591927			1302 bp distal
Rr591928	regulatory region 591928			within coordinates
Rr591929	regulatory region 591929			919 bp distal
Rr591930	regulatory region 591930			723 bp proximal
Rr591931	regulatory region 591931			1560 bp proximal
Tssr37187	transcription start site region 37187			1341 bp downstream
Tssr37188	transcription start site region 37188			1305 bp downstream
Tssr37189	transcription start site region 37189			1275 bp downstream
Tssr37190	transcription start site region 37190			1227 bp downstream
Tssr37191	transcription start site region 37191			1158 bp downstream
Tssr37192	transcription start site region 37192			1132 bp downstream
Tssr37193	transcription start site region 37193			1076 bp downstream
Tssr37194	transcription start site region 37194			490 bp downstream
Tssr37195	transcription start site region 37195			775 bp upstream
Tssr37196	transcription start site region 37196			801 bp upstream
Tssr37197	transcription start site region 37197			837 bp upstream
Tssr37198	transcription start site region 37198			859 bp upstream
Tssr37199	transcription start site region 37199			874 bp upstream
Tssr37200	transcription start site region 37200			919 bp upstream
Tssr37201	transcription start site region 37201			1273 bp upstream
Tssr37202	transcription start site region 37202			1399 bp upstream
Tssr37203	transcription start site region 37203			1436 bp upstream
Tssr37204	transcription start site region 37204			1602 bp upstream
Tssr37205	transcription start site region 37205			1647 bp upstream
Tssr37206	transcription start site region 37206			1810 bp upstream
Tssr41631	transcription start site region 41631			1561 bp upstream
Tssr41632	transcription start site region 41632			1484 bp upstream
Tssr41633	transcription start site region 41633			470 bp downstream
Tssr41634	transcription start site region 41634			670 bp downstream