rs229039742 SNP Detail

Summary

• ID
  rs229039742
• Variation Type
  SNP
• Alleles
  A/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
  Chr5:123275023 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGGTCTTTTT AACCCGGGGA
  GGGGGAAGAG AGGCAATGGT CCAAGGTCAC TAGCTAGGTC CACATCTAAC CTACAGCTGC
  CAGACTAGAA GCACCCTGAT TAGGCACCAA TCTGCCTCCA GCAACAACTC AGGGAAGCCT
  TCCAGGCTCC CCGACTCACA CGTCAGCACT CACTGTAGGG GTGAGGAGAA AAGAGAAGAC
  W
  AGAGGCTGGA AGCTGAGGCC CAAATAGGGG AAGCCAGCAG GAGCCGCGGC ACCTGAGGCC
  AAATGGCTTA TCAAAGTAAC AAAACGAGAA ACACACTAGG GGGCCAGGGG TCAGGGATCA
  AGGGCCACAC CAGTTTCAGC AGCAAAGCTT CCTGCCTAGG AGGAGGGCAA GCCAACTGCT
  AGCCACCAAG CTGGGTGACA                                            
  
  W = A/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	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
ss366533314	MGP_WTSI_5_123586969	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	A	T	T	T	T	A	T	T	T	T	A	T	T	T	T	T	T	A	T	T	T	T	T	T	A	T	T	T	T
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	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
rs229039742					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	A	T	T	T	T	A	T	T	T	T	A	T	T	T	T	T	T	A	T	T	T	T	T	T	A	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
ss366533314	MGP_WTSI_5_123586969	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:123275023 () rs orientation: forward

Symbol	Name	Function Class
AI480526	expressed sequence AI480526	within coordinates
Cpgi16574	CpG island 16574	1229 bp distal
Cpgi16575	CpG island 16575	782 bp proximal
Cpgi16576	CpG island 16576	1547 bp proximal
Gm38102	predicted gene, 38102	within coordinates
Rr378574	regulatory region 378574	within coordinates
Rr620109	regulatory region 620109	1155 bp distal
Rr620110	regulatory region 620110	239 bp distal
Rr620111	regulatory region 620111	within coordinates
Rr620112	regulatory region 620112	204 bp proximal
Rr620113	regulatory region 620113	1589 bp proximal
Tssr48758	transcription start site region 48758	1328 bp downstream
Tssr48759	transcription start site region 48759	1158 bp downstream
Tssr48760	transcription start site region 48760	1105 bp downstream
Tssr48761	transcription start site region 48761	288 bp downstream
Tssr48762	transcription start site region 48762	1651 bp upstream
Tssr48763	transcription start site region 48763	1695 bp upstream
Tssr53205	transcription start site region 53205	1430 bp upstream
Tssr53206	transcription start site region 53206	1401 bp upstream
Tssr53207	transcription start site region 53207	405 bp upstream
Tssr53208	transcription start site region 53208	758 bp downstream