rs49741480 SNP Detail

Summary

• ID
  rs49741480
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:134998257 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACAGCACAGG ATACAGAGTA
  AGACCCTGTT CTCACAAGAA GAGGGAAACC ATTATGTCCC GTCGCTATCT CTAGCCTAGC
  GTCTTCCCTT CTTTGTGCTG TTTTCCACGA CCCTCTCCCC ATTTCTTCAG GTTCCTCAAA
  AGTATTGTCT GCCACCTCCA GTCGCAGACA TTGTGATATT TTGAGAGCCC TAAGCCTTTT
  Y
  TTTCCTAATG CTGCGACAGT TTAATGCAGT TCTTCATGTT GTGCTGACCC CCAACAGTAA
  AATTATTTTT GGTGCTACTT CATAACTGTA ACTTTGCTAC TGCTATGAAT TGTAATGAAA
  TTGTCTGCAT TTTCCAATAG TCTTAGGTGA CCCCTGTAAA AAGGCCGTTT GATCTTTCAA
  AGGGGTCTTG ACCCCCAGTT                                            
  
  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	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
ss363361417	MGP_WTSI_4_134826861	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	C	T	C	C	C	T	C	C	C	C	T	T	C	C	C	T	C	C	T	C	C	C	C	T	T	T	C	T	C	T	C	C	T	T	C	C	C	C	C	C	T	C	C	C	T	C	C	C
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	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
rs49741480					SNP	T	T	T	T	C	T	C	C	C	T	C	C	C	C	T	T	C	C	C	T	C	C	T	C	C	C	C	T	T	T	C	T	C	T	C	C	T	T	C	C	C	C	C	C	T	C	C	C	T	C	C	C

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
ss363361417	MGP_WTSI_4_134826861	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:134998257 () rs orientation: forward

Symbol	Name	Function Class
Clic4	chloride intracellular channel 4	Intron
Cpgi15068	CpG island 15068	951 bp proximal
Rr398589	regulatory region 398589	1944 bp upstream
Rr601974	regulatory region 601974	592 bp distal
Rr601975	regulatory region 601975	274 bp proximal
Rr601976	regulatory region 601976	711 bp proximal
Rr601977	regulatory region 601977	757 bp proximal
Rr601978	regulatory region 601978	1503 bp proximal
Rr601979	regulatory region 601979	1846 bp proximal
Rr601980	regulatory region 601980	1858 bp proximal
Tssr39607	transcription start site region 39607	1227 bp upstream
Tssr43972	transcription start site region 43972	217 bp downstream
Tssr43973	transcription start site region 43973	1760 bp downstream
Tssr43974	transcription start site region 43974	1788 bp downstream
Tssr43975	transcription start site region 43975	1808 bp downstream
Tssr43976	transcription start site region 43976	1835 bp downstream
Tssr43977	transcription start site region 43977	1852 bp downstream