Variant report

Variant	rs824093
Chromosome Location	chr3:135159149-135159150
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RAD21	chr3:135159056-135159412	MCF-7	breast:	n/a	n/a

Variant related genes	Relation type
ENSG00000240086	TF binding region

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1069511	0.84[ASN][1000 genomes]
rs1069513	0.84[ASN][1000 genomes]
rs12494120	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1661460	0.84[ASN][1000 genomes]
rs1725996	0.84[ASN][1000 genomes]
rs711924	0.84[ASN][1000 genomes]
rs711925	0.84[ASN][1000 genomes]
rs711937	0.84[ASN][1000 genomes]
rs711942	0.80[EUR][1000 genomes]
rs711956	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs711958	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs711959	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs711961	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73227924	1.00[ASN][1000 genomes]
rs746408	0.95[EUR][1000 genomes]
rs823966	0.84[ASN][1000 genomes]
rs823967	0.84[ASN][1000 genomes]
rs823978	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs824074	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs824086	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs824088	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs824090	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs824091	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs824099	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs824100	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs844029	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs850699	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs941132	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9837324	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460860	chr3:135107678-135769006	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv591829	chr3:135107678-135769006	Flanking Active TSS Strong transcription Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135158400-135161000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr3:135158400-135162000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr3:135158600-135161600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr3:135158800-135159200	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr3:135158800-135159200	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr3:135158800-135159400	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr3:135158800-135159600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr3:135158800-135159800	Enhancers	Primary hematopoietic stem cells	blood
9	chr3:135159000-135159200	Enhancers	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links