rs238090020 SNP Detail

Summary

• ID
  rs238090020
• Variation Type
  SNP
• Alleles
  G/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
  Chr13:83876939 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGCTTCCATC TATATAGAGA
  CAAAATAAAA CTCAGTACAT TTTGAGTGCT GCAGACATGA TACAACATAC AGCATGGTTG
  AAAAATGTCC TCCTTGCAGA TGGCTCTCCA TTGCTGTCTC TACACATTTT TAAATAGATT
  TTTGTTTTGC AAGAAACGTT AGAAAGCAAT AGCTAGTGAA TACCGCATTC CCTCGGTTAA
  K
  GAGCACAATT CTTTAGTAAT CGTTGGAATC CCTTCACTCA CACATACTTT CTCAAATAAA
  TTGGCTCCAA CCTGTGTTTA TACTTATATG AAGTTAATCA GACAATCAAA CTTTGAGCCT
  CAAAACAGTA GGCATTATAG TCAATGGAGG GGTATGTAAA GAAAGACAAA AAGGAATGTG
  TTTCTTTTAT GGTCAAACTA                                            
  
  K = G/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	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
ss389280596	MGP_WTSI_13_83868425	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	T	T	T	T
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
rs238090020					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	T	T	T	T

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
ss389280596	MGP_WTSI_13_83868425	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:83876939 () rs orientation: forward

Symbol	Name	Function Class
Cpgi5905	CpG island 5905	1289 bp distal
Cpgi5906	CpG island 5906	726 bp proximal
Cpgi5907	CpG island 5907	1584 bp proximal
Gm55122	predicted gene, 55122	within coordinates
Mir9-2hg	Mir9-2 host gene	within coordinates
Rr483280	regulatory region 483280	1433 bp distal
Rr483281	regulatory region 483281	727 bp distal
Rr483282	regulatory region 483282	170 bp proximal
Rr483283	regulatory region 483283	671 bp proximal
Rr483284	regulatory region 483284	775 bp proximal
Tssr120525	transcription start site region 120525	1462 bp downstream
Tssr120526	transcription start site region 120526	1433 bp downstream
Tssr120527	transcription start site region 120527	637 bp upstream
Tssr120528	transcription start site region 120528	655 bp upstream
Tssr123337	transcription start site region 123337	1633 bp upstream
Tssr123338	transcription start site region 123338	312 bp downstream
Tssr123339	transcription start site region 123339	724 bp downstream
Tssr123340	transcription start site region 123340	849 bp downstream
Tssr123341	transcription start site region 123341	861 bp downstream