rs249404971 SNP Detail

Summary

• ID
  rs249404971
• 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
  Chr3:53372660 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CAGGTTGGCC TCGGACTCAG
  AAATCCGCCT GCCTCTGCCT CCCGAGTGCT GGGAATAAAG GCGGGCGCCA CCACGACCAG
  CGGATCTAGA GTTTTGTTTT GCTCTTTGTA AGACCCCTTT TCCTCCCTTC CCCCCTTTTC
  AGATAACATA TATTTAATCT TTCATATTTG GTGGTGCTGA ATTTTTTTCT TTTCAAATAA
  R
  CTTCTGCACT TGCTGAGTCT CATCTAATTA AAATTTGAAA CAAAATGTCT TTTTATCATG
  TACTTAGAAT TTGCCACAGT TGGTTTCTGA GCTGTTTTTT AACCATTCTG AGAAAATAAA
  TTTTAAGTTA AGGTAGACAT GAATGCAGAC ATGCATATGT CTATCTTCTC CCTTCTCAGC
  CTTGTAAAAA TGTCTGGTAA                                            
  
  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	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
ss357982288	MGP_WTSI_3_53269161	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	G	A	A	A	A	A	A	A	G	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	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	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
rs249404971					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	A	A	A	A	A	G	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	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
ss357982288	MGP_WTSI_3_53269161	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:53372660 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13163	CpG island 13163	1192 bp distal
Nhlrc3	NHL repeat containing 3	1981 bp upstream
Proser1	proline and serine rich 1	Intron
Rr374971	regulatory region 374971	719 bp downstream
Rr576697	regulatory region 576697	1563 bp distal
Rr576698	regulatory region 576698	1627 bp distal
Rr576699	regulatory region 576699	554 bp distal
Rr576700	regulatory region 576700	1220 bp proximal
Tssr29113	transcription start site region 29113	1649 bp downstream
Tssr29114	transcription start site region 29114	1558 bp downstream
Tssr29115	transcription start site region 29115	1530 bp downstream
Tssr29116	transcription start site region 29116	1417 bp downstream
Tssr29117	transcription start site region 29117	1333 bp downstream
Tssr33270	transcription start site region 33270	1933 bp upstream