rs258300671 SNP Detail

Summary

• ID
  rs258300671
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:42950519 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCGGCTCTGC CCCGCCCCTC
  CCCGCCCATC TGCGGGGGAG GAGACTCCCC GTCAGTGACT TCATTGAGTA GGTTCTTGGG
  GATTGGGCTT GGGTCCTCCC CAGAGAGGCG AGAGGAGCTC ACTGACTCTC AGGCCCTCAC
  TATCACACCT GTCACAGGTA CACACGCTGC CACTCAACAA CTACACACTG TCACTGCCAG
  Y
  CTCACTGTCA CACAGCCGAA CAGGCGCTCA CATCATTCAG CCAGACACTG CTGCACCTGA
  GAGCAGGTGG CCACTGGATC CTCTCTCTGC ACTCTACACC TGGGGACCGG GTCCAGCTCC
  CTGGGCACGA TACAGGCCTT GCTGGGTCAC GGCCTCTGGG AATCTGAGGA GGTGGCTTCC
  AGAGCTACAG CGTCCCAAGC                                            
  
  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	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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss361308115	MGP_WTSI_4_42963391	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	C	C	C	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
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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs258300671					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	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

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
ss361308115	MGP_WTSI_4_42963391	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:42950519 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi14174	CpG island 14174			within coordinates
Dnajb5	DnaJ heat shock protein family (Hsp40) member B5			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Gm69502	predicted gene, 69502			902 bp downstream
Rr398224	regulatory region 398224			599 bp downstream
Rr590883	regulatory region 590883			1740 bp distal
Rr590884	regulatory region 590884			642 bp distal
Rr590885	regulatory region 590885			113 bp distal
Rr590886	regulatory region 590886			within coordinates
Tssr36908	transcription start site region 36908			596 bp downstream
Tssr36909	transcription start site region 36909			74 bp downstream
Tssr36910	transcription start site region 36910			44 bp downstream
Tssr36911	transcription start site region 36911			27 bp downstream
Tssr41383	transcription start site region 41383			992 bp upstream