rs249425797 SNP Detail

Summary

• ID
  rs249425797
• 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
  Chr1:10109234 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCATCTTCTT TTAGCTCCCC
  CAACCCAGTT TTTCATTCTA TTAGAACTTT TTTCCTTGGC TTAGTAATAT ATTAGTTGTT
  AGGCATTGCT TGAAATGCAC TTCTTGACAT TTCTGCTTTA GAGCACACAG ATTTTAAAAA
  GCACAGCTCG GAGATGCCTT TCCTTAACTC TTCGTCAGTA ACTGCTCCTT CACAGGAATT
  M
  GAAGGCTCTG TAGCTGCTTC ACCTGGACCC CGGGGTTTTT GCAGTTCTGG AACTATGTAG
  TCCAGGCTGG CCTCAAACTC GAGAGCTGCC TGCTTGAGTG CTGGGATTCA AGGCGTGCAC
  CACTACTGCC CGTCTGTATC CTCTTCTAAT GCAGGTGCTT TTGCCTGGGC TGCAGGAGAC
  CCTGTTTCAA AAAGTCAAGG                                            
  
  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	WSB/EiJ	ZALENDE/EiJ
ss348594621	MGP_WTSI_1_10029090	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	A	C	C	C	C	A	C	C	C	C	C	C	C	C	C	C	C	C	A	C	C	C	C	C	C	C	C	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
rs249425797					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	A	C	C	C	C	A	C	C	C	C	C	C	C	C	C	C	C	C	A	C	C	C	C	C	C	C	C	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
ss348594621	MGP_WTSI_1_10029090	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:10109234 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cops5	COP9 signalosome subunit 5			850 bp upstream
Cpgi31	CpG island 31			566 bp distal
Cpgi32	CpG island 32			512 bp proximal
Cspp1	centrosome and spindle pole associated protein 1			Intron
				Noncoding-Transcript-Variant
Rr395966	regulatory region 395966			989 bp upstream
Rr407692	regulatory region 407692			1093 bp distal
Rr407693	regulatory region 407693			737 bp distal
Rr407694	regulatory region 407694			257 bp distal
Rr407695	regulatory region 407695			274 bp proximal
Rr407696	regulatory region 407696			667 bp proximal
Rr407697	regulatory region 407697			787 bp proximal
Tssr4	transcription start site region 4			781 bp downstream
Tssr5924	transcription start site region 5924			753 bp upstream
Tssr5925	transcription start site region 5925			788 bp upstream
Tssr5926	transcription start site region 5926			815 bp upstream
Tssr10955	transcription start site region 10955			1115 bp upstream
Tssr10956	transcription start site region 10956			1078 bp upstream
Tssr10957	transcription start site region 10957			1041 bp upstream
Tssr10958	transcription start site region 10958			840 bp upstream
Tssr10959	transcription start site region 10959			998 bp downstream