rs239057334 SNP Detail

Summary

• ID
  rs239057334
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr13:23936782 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GAGATCGCGC AGGACTTCAA
  GACCGACCTG CGCTTCCAGA GCTCGGCCGT CATGGCTCTG CAGGAGGCGA GCGAGGCCTA
  CCTTGTGGGT CTGTTTGAGG ACACCAACCT GTGCGCCATC CACGCCAAGC GTGTCACCAT
  CATGCCCAAG GACATCCAGC TCGCCCGCCG CATTCGTGGG GAGAGGGCTT AAACGAAACA
  W
  AGTGCAAACT GGAACCCAAA GGCTCTTTTC AGAGCCACCC ACAGTTTCTG TAAAAGCAGC
  TGTTACTTTT CTACTGTCTT GGAAACTTTG TTTTTCAAAG ATTTATCTAG TTACAAAGTA
  TACTGTTGCT TTCTTCAGTA GGCATCAGTT CTCACTTCAG TTGTTGCTGG TATTTGAGCT
  CATGTCCTGG AAACTGCCTT                                            
  
  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	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	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
ss387989444	MGP_WTSI_13_23844668	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	A	A
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/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
rs239057334					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	A	A

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
ss387989444	MGP_WTSI_13_23844668	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:23936782 () rs orientation: forward

Symbol	Name	Function Class
Cpgi5374	CpG island 5374	1143 bp distal
Gm54518	predicted gene, 54518	1284 bp upstream
H2ac4	H2A clustered histone 4	1201 bp downstream
H3c2	H3 clustered histone 2	mRNA-UTR
Rr403663	regulatory region 403663	1659 bp downstream
Rr403664	regulatory region 403664	413 bp downstream
Rr475938	regulatory region 475938	1663 bp distal
Rr475939	regulatory region 475939	1406 bp distal
Rr475940	regulatory region 475940	1169 bp distal
Rr475941	regulatory region 475941	522 bp distal
Rr475942	regulatory region 475942	870 bp proximal
Tssr118860	transcription start site region 118860	1713 bp downstream
Tssr118861	transcription start site region 118861	1681 bp downstream
Tssr118862	transcription start site region 118862	1592 bp downstream
Tssr118863	transcription start site region 118863	448 bp downstream
Tssr121747	transcription start site region 121747	589 bp upstream