Variant report

Variant	rs1417716
Chromosome Location	chr6:82272774-82272775
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:82271462..82274073-chr6:82275902..82278747,2	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1145880	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1145887	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1145889	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12195387	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12208792	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12213217	0.84[EUR][1000 genomes]
rs12213269	0.84[EUR][1000 genomes]
rs1276879	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1276881	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1276882	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1276883	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1341226	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1917065	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2027435	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2753422	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4126327	0.84[EUR][1000 genomes]
rs4285367	0.83[AMR][1000 genomes]
rs4448140	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4591906	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4706897	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4706898	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6906526	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6910041	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6912820	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7752892	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs912029	0.84[EUR][1000 genomes]
rs9294233	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9344195	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9344199	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9344202	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9344203	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9350930	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9353014	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9353018	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9359497	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9361839	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9443924	0.83[EUR][1000 genomes]
rs9443930	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9449340	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9449342	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9449346	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv604087	chr6:81792413-82326091	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:82268000-82274400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr6:82270800-82273200	Enhancers	Liver	Liver
3	chr6:82270800-82273200	Enhancers	Fetal Intestine Large	intestine
4	chr6:82270800-82275200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr6:82271200-82274400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr6:82271600-82274400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr6:82271800-82276000	Weak transcription	Small Intestine	intestine
8	chr6:82272000-82272800	Enhancers	Muscle Satellite Cultured Cells	--
9	chr6:82272000-82274200	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr6:82272200-82273000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr6:82272200-82273000	Enhancers	Rectal Smooth Muscle	rectum
12	chr6:82272200-82273000	Enhancers	Osteobl	bone
13	chr6:82272200-82274200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr6:82272200-82274200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr6:82272200-82274200	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr6:82272200-82274400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr6:82272200-82274400	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr6:82272200-82276000	Weak transcription	Aorta	Aorta
19	chr6:82272400-82272800	Weak transcription	Stomach Mucosa	stomach
20	chr6:82272400-82273000	Enhancers	Colon Smooth Muscle	Colon
21	chr6:82272600-82274400	Weak transcription	HSMM	muscle
22	chr6:82272600-82274600	Weak transcription	NH-A	brain
23	chr6:82272600-82274800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr6:82272600-82275000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr6:82272600-82277800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr6:82272600-82281400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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