rs254489804 SNP Detail

Summary

• ID
  rs254489804
• Variation Type
  SNP
• Alleles
  A

• 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
  Chr3:89960012 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATATAAGATT CCCTCCTCCC
  CACCCCCTCC CTCCTTTTCC CTCTCGCGCT CGCTCTCGCG CCTTCCCCCT CCCACTTGCC
  TTCCTGCGTC CCTCAGCACG TGACGCGAAA GGGCCGCGCA CGTCAGCGTG CGCGCGCCTC
  CCCGCCACGA AACACTGCTC TTGAGTTCCG CGCGCCCGCC CCGCCCCCGC CCCGCCCCGC
  A
  CGGATCCGCC TCCATCACGT GACTCCAGTA AGGTCTCGGC TTCCTCTTAC TGGCGTAGTT
  CCGCGTCTCC GCACTCCCAG GTACCTTTGC GGACATAAGT CACGTGGCGG AGGGGGTGGG
  GGTGGGGAAA TGGGACGGGA AGGTCCGATG CTTAACTAGC GCCCCCATCC ACCATGTTTT
  CTGACGGACT CTAGCCTGGT                                            
  
  A = A
  

  
  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	129S1/SvImJ	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	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss358825066	MGP_WTSI_3_89856627	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	A	A	A	A	A	A	A	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	129S1/SvImJ	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	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs254489804					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	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
ss358825066	MGP_WTSI_3_89856627	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:89960012 () rs orientation: forward

Symbol	Name	Function Class
4933434E20Rik	RIKEN cDNA 4933434E20 gene	within coordinates
Cpgi13449	CpG island 13449	within coordinates
Gm53012	predicted gene, 53012	199 bp upstream
Rr375341	regulatory region 375341	within coordinates
Rr580266	regulatory region 580266	1297 bp distal
Rr580267	regulatory region 580267	1059 bp distal
Rr580268	regulatory region 580268	264 bp distal
Rr580269	regulatory region 580269	807 bp distal
Rr580270	regulatory region 580270	within coordinates
Tssr30147	transcription start site region 30147	1140 bp downstream
Tssr30148	transcription start site region 30148	1069 bp downstream
Tssr30149	transcription start site region 30149	119 bp upstream
Tssr30150	transcription start site region 30150	216 bp upstream
Tssr34189	transcription start site region 34189	246 bp upstream
Tssr34190	transcription start site region 34190	184 bp upstream
Tssr34191	transcription start site region 34191	78 bp upstream
Ubap2l	ubiquitin-associated protein 2-like	77 bp upstream