rs239690006 SNP Detail

Summary

• ID
  rs239690006
• 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
  Chr4:95856309 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAGAATTGGC TTTTTTTGTT
  TACGCTTGAT CCATGTGCAG GATTTTTTTA GCGCAGATTG CCTCAGTCCT CATTTTTTCC
  CAGTATTCCG GTGAGCCAAA TGGTTTCTAA CCTGTTGGAA TTTCCTAGAT ATGACAGAAC
  TGCCGTCCAG GTGTGATTTC TAGGCCTTTA TTGTGCTAGG ATAGTGTTTG ATGCCCTACA
  R
  TTGGGTGTTG ATAGCGCTGA TGGCTCAACT CAGTTGTATA ATTGTGAAGA GAGTCTGATT
  GGAATGTAAG TAGACTGGAT CAGGAGGATT ACATCCTCCA AGAGATTGAC TGGCCATCTT
  CTAATACTAG CAAATCCAAA GGACAAATAG GGAAGATCTC TATGAGTGTT TGAAATTTGT
  AGTCACTTTT GCACTTTAGA                                            
  
  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
ss362492468	MGP_WTSI_4_95634763	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	A	G	G	G	G	A	G	G	G	G	G	A	G	G	G	G	G	G	A	G	G	G	G	G	G	G	A	G	G	G	G
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
rs239690006					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	A	G	G	G	G	A	G	G	G	G	G	A	G	G	G	G	G	G	A	G	G	G	G	G	G	G	A	G	G	G	G

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
ss362492468	MGP_WTSI_4_95634763	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:95856309 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
9530080O11Rik	RIKEN cDNA 9530080O11 gene			417 bp upstream
Cpgi14458	CpG island 14458			141 bp distal
Hook1	hook microtubule tethering protein 1			Intron
				Noncoding-Transcript-Variant
Rr398349	regulatory region 398349			809 bp downstream
Rr595499	regulatory region 595499			1114 bp distal
Rr595500	regulatory region 595500			693 bp distal
Rr595501	regulatory region 595501			within coordinates
Tssr37834	transcription start site region 37834			927 bp downstream
Tssr37835	transcription start site region 37835			752 bp downstream
Tssr37836	transcription start site region 37836			691 bp downstream
Tssr37837	transcription start site region 37837			669 bp downstream
Tssr37838	transcription start site region 37838			646 bp downstream
Tssr37839	transcription start site region 37839			1847 bp upstream
Tssr37840	transcription start site region 37840			1878 bp upstream
Tssr42465	transcription start site region 42465			1055 bp upstream