rs238245678 SNP Detail

Summary

• ID
  rs238245678
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr5:137746292 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GAGTTAGTTG CTCCAGCGGA
  GACAGGAAAG GTAAGAGATG GGTTCATGGG GGCGGGGCGG GACCTACTGT ACTCAGGCGG
  CTGACCTATA TCCTGGGCCT CCTCCCCTCA GTTTCCGTCC TGCCGGCCCA CCCCTTATCA
  CCTGTCTGTT GGATAGGCAT AAAGTCCCCT CTCCCTTTTT GCAATTTGTA CTCTGAAATC
  Y
  TTTTTCTCTC CCAGCCTTTC TTTATTCTGA ATACACATGC ACCCTCCCTT CCTTCCTTCC
  TTCCTTCCTT CCTTCCTTCC TTCCTTCCTT CCTTCCTTCC TTCCTTCCGT TTTTCCTTTC
  CATCTCTTTT CTTTTTTCTT TTCTCTCCTT TTTCTGTGGC CTTCACATTG TTGCCCTTGG
  CCTATGTGGC CTGCCCACTT                                            
  
  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	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
ss366884394	MGP_WTSI_5_138189258	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	C	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
rs238245678					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	C	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
ss366884394	MGP_WTSI_5_138189258	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:137746292 () rs orientation: forward

Symbol	Name	Function Class
Cpgi16849	CpG island 16849	1543 bp distal
Gm57848	predicted gene, 57848	within coordinates
Gm68923	predicted gene, 68923	975 bp downstream
Rr622972	regulatory region 622972	1036 bp distal
Rr622973	regulatory region 622973	710 bp distal
Rr622974	regulatory region 622974	437 bp distal
Rr622975	regulatory region 622975	155 bp proximal
Tsc22d4	Tsc22 domain family, member 4	within coordinates
Tssr49369	transcription start site region 49369	1852 bp downstream
Tssr49370	transcription start site region 49370	1836 bp downstream
Tssr49371	transcription start site region 49371	1781 bp downstream
Tssr49372	transcription start site region 49372	1656 bp downstream
Tssr49373	transcription start site region 49373	1413 bp downstream
Tssr49374	transcription start site region 49374	1379 bp downstream
Tssr49375	transcription start site region 49375	1329 bp downstream
Tssr49376	transcription start site region 49376	1113 bp downstream
Tssr49377	transcription start site region 49377	1055 bp downstream
Tssr49378	transcription start site region 49378	941 bp downstream
Tssr49379	transcription start site region 49379	497 bp downstream
Tssr49380	transcription start site region 49380	388 bp downstream
Tssr49381	transcription start site region 49381	346 bp downstream
Tssr49382	transcription start site region 49382	296 bp downstream
Tssr49383	transcription start site region 49383	936 bp upstream
Tssr54036	transcription start site region 54036	40 bp upstream