rs242412869 SNP Detail

Summary

• ID
  rs242412869
• Variation Type
  SNP
• Alleles
  C/T

• 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
  Chr3:89960175 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGTTCCGCGC GCCCGCCCCG
  CCCCCGCCCC GCCCCGCACG GATCCGCCTC CATCACGTGA CTCCAGTAAG GTCTCGGCTT
  CCTCTTACTG GCGTAGTTCC GCGTCTCCGC ACTCCCAGGT ACCTTTGCGG ACATAAGTCA
  CGTGGCGGAG GGGGTGGGGG TGGGGAAATG GGACGGGAAG GTCCGATGCT TAACTAGCGC
  Y
  CCCATCCACC ATGTTTTCTG ACGGACTCTA GCCTGGTTTT TTTTTTTTTT TTTTTTTTAA
  TCGAAAACCA TATGGAAATG TTCGGAGAGC TCCAGGGAAC CTAGGTTCCC TGGCTTCGGC
  AGAGCCTGGG CTAACGCGCG AGCGCGGCGG GACTGTCCTA GCAGGTGTTC CCGGAGAGAG
  AGGCGATGGC GTCTAGTAGT                                            
  
  Y = C/T
  

  
  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	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
ss358825074	MGP_WTSI_3_89856790	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	T	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs242412869					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	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
ss358825074	MGP_WTSI_3_89856790	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:89960175 () rs orientation: forward

Symbol	Name	Function Class
4933434E20Rik	RIKEN cDNA 4933434E20 gene	within coordinates
Cpgi13449	CpG island 13449	within coordinates
Gm53012	predicted gene, 53012	36 bp upstream
Rr375341	regulatory region 375341	within coordinates
Rr580266	regulatory region 580266	1460 bp distal
Rr580267	regulatory region 580267	1222 bp distal
Rr580268	regulatory region 580268	427 bp distal
Rr580269	regulatory region 580269	970 bp distal
Rr580270	regulatory region 580270	within coordinates
Tssr30147	transcription start site region 30147	1303 bp downstream
Tssr30148	transcription start site region 30148	1232 bp downstream
Tssr30149	transcription start site region 30149	11 bp downstream
Tssr30150	transcription start site region 30150	53 bp upstream
Tssr34189	transcription start site region 34189	409 bp upstream
Tssr34190	transcription start site region 34190	347 bp upstream
Tssr34191	transcription start site region 34191	241 bp upstream
Ubap2l	ubiquitin-associated protein 2-like	240 bp upstream