rs249407284 SNP Detail

Summary

• ID
  rs249407284
• 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
  Chr1:36596038 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCAGGACCAG TCCTGTTTCT
  CCAACAGCCT TCTACAAGAC ACTGACCCTC CCGCAGAGAG GCGACCGGGC CACGAGTCAG
  TTCCAGGCTT CTGTCTGGGA ATCTCCTCGC CTCCGCGAGA GCGGGATCGT GGAGGGAAGT
  GAAATGGGTT GGGGAGGCCG AAGCGGGGTT CTCCTGGACA ACAGGGGATG CCCACAAATG
  R
  TCGTCAAGGG CTGCGTCCCC TCCTCCCCGG CTCTGACGAA CGTTCTTAAC TCCGGGATTG
  CACCTCGGGG ACCATGCACT AGGCAGTAGG CAAACGGAAC GGATCTCCAC TAATCTAGAC
  GCTAGGGGCT GGGAACAGAG ATGCAGAATC TGAGGATTGC ACCCCAAAAC AAAGGTTCCT
  AGCCAAGACC CGGTCTCGGT                                            
  
  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
ss349253229	MGP_WTSI_1_36613802	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	G	A	A	A	A	G	A	A	A	A	A	G	A	A	A	A	A	A	G	A	A	A	A	A	A	A	G	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	WSB/EiJ	ZALENDE/EiJ
rs249407284					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	G	A	A	A	A	G	A	A	A	A	A	G	A	A	A	A	A	A	G	A	A	A	A	A	A	A	G	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
ss349253229	MGP_WTSI_1_36613802	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:36596038 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi148	CpG island 148			within coordinates
D430040D24Rik	RIKEN cDNA D430040D24 gene			744 bp upstream
Rr409349	regulatory region 409349			1243 bp distal
Rr409350	regulatory region 409350			291 bp proximal
Rr409351	regulatory region 409351			559 bp proximal
Rr409352	regulatory region 409352			1382 bp proximal
Rr409353	regulatory region 409353			1413 bp proximal
Sema4c	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C			Intron
				mRNA-UTR
Tssr40	transcription start site region 40			738 bp upstream
Tssr11262	transcription start site region 11262			266 bp upstream
Tssr11263	transcription start site region 11263			560 bp downstream
Tssr11264	transcription start site region 11264			1225 bp downstream
Tssr11265	transcription start site region 11265			1257 bp downstream
Tssr11266	transcription start site region 11266			1393 bp downstream