Variant report

Variant	rs28396261
Chromosome Location	chr3:157990248-157990249
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:157989031..157991493-chr3:157993072..157995129,2	K562	blood:
2	chr3:157988669..157990531-chr3:157993629..157996480,3	K562	blood:
3	chr3:157987978..157990899-chr3:157994942..157996783,2	MCF-7	breast:
4	chr3:157918972..157921649-chr3:157988884..157990990,2	K562	blood:

Variant related genes	Relation type
ENSG00000174891	Chromatin interaction
ENSG00000241723	Chromatin interaction

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs10049160	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12330339	1.00[EUR][1000 genomes]
rs13321065	1.00[EUR][1000 genomes]
rs13322986	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs13323462	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16829007	1.00[EUR][1000 genomes]
rs28402668	1.00[EUR][1000 genomes]
rs28428827	1.00[EUR][1000 genomes]
rs28506940	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28608522	1.00[EUR][1000 genomes]
rs28646251	1.00[EUR][1000 genomes]
rs28680366	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28720767	1.00[EUR][1000 genomes]
rs6441190	1.00[EUR][1000 genomes]
rs6441192	1.00[EUR][1000 genomes]
rs6762087	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6762923	1.00[EUR][1000 genomes]
rs6765159	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6767072	1.00[EUR][1000 genomes]
rs6775960	1.00[EUR][1000 genomes]
rs6776674	1.00[EUR][1000 genomes]
rs6784612	1.00[EUR][1000 genomes]
rs6784707	1.00[EUR][1000 genomes]
rs6786770	1.00[EUR][1000 genomes]
rs6787212	1.00[EUR][1000 genomes]
rs6789607	1.00[EUR][1000 genomes]
rs6798405	1.00[EUR][1000 genomes]
rs6801076	1.00[EUR][1000 genomes]
rs6804113	1.00[EUR][1000 genomes]
rs6809280	1.00[EUR][1000 genomes]
rs6810324	1.00[EUR][1000 genomes]
rs73013336	1.00[EUR][1000 genomes]
rs73017472	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73025925	1.00[EUR][1000 genomes]
rs73025951	1.00[EUR][1000 genomes]
rs73027918	1.00[EUR][1000 genomes]
rs73028000	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73028775	1.00[EUR][1000 genomes]
rs73028779	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73029897	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73029899	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73030514	1.00[EUR][1000 genomes]
rs73031618	1.00[EUR][1000 genomes]
rs73031643	1.00[EUR][1000 genomes]
rs73031646	1.00[EUR][1000 genomes]
rs7613737	1.00[EUR][1000 genomes]
rs7618252	1.00[EUR][1000 genomes]
rs7621282	1.00[EUR][1000 genomes]
rs7622013	1.00[EUR][1000 genomes]
rs7627082	1.00[EUR][1000 genomes]
rs7633366	1.00[EUR][1000 genomes]
rs7635356	1.00[EUR][1000 genomes]
rs7638647	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9817119	1.00[EUR][1000 genomes]
rs9821945	1.00[EUR][1000 genomes]
rs9824822	1.00[EUR][1000 genomes]
rs9829790	1.00[EUR][1000 genomes]
rs9838425	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9840759	1.00[EUR][1000 genomes]
rs9841653	1.00[EUR][1000 genomes]
rs9843252	1.00[EUR][1000 genomes]
rs9846272	1.00[EUR][1000 genomes]
rs9851634	0.81[AFR][1000 genomes]
rs9852177	1.00[EUR][1000 genomes]
rs9852974	1.00[EUR][1000 genomes]
rs9858864	1.00[EUR][1000 genomes]
rs9861869	1.00[EUR][1000 genomes]
rs9863618	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9867426	0.94[AFR][1000 genomes]
rs9868975	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9869501	1.00[EUR][1000 genomes]
rs9870885	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9872495	1.00[EUR][1000 genomes]
rs9872642	1.00[EUR][1000 genomes]
rs9873074	1.00[EUR][1000 genomes]
rs9877427	1.00[EUR][1000 genomes]
rs9877843	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9877873	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9878828	1.00[EUR][1000 genomes]
rs9882507	1.00[EUR][1000 genomes]
rs9884071	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013391	chr3:157505943-158115553	Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv536775	chr3:157505943-158115553	Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1002378	chr3:157715428-158673414	Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
4	nsv829768	chr3:157832878-158012070	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv877689	chr3:157858930-158133307	Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv916910	chr3:157926799-158183372	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:157963800-157995800	Weak transcription	Gastric	stomach
2	chr3:157984800-158001200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr3:157985000-157993800	Weak transcription	Ovary	ovary
4	chr3:157985200-157997200	Weak transcription	Primary monocytes fromperipheralblood	blood
5	chr3:157985200-157997200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr3:157985600-157998400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr3:157986000-157998000	Weak transcription	Fetal Intestine Large	intestine
8	chr3:157986200-157992400	Weak transcription	Dnd41	blood
9	chr3:157986200-157993000	Weak transcription	Primary T cells from cord blood	blood
10	chr3:157986200-157997200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr3:157986200-158001200	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr3:157986200-158006600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr3:157986400-157991400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr3:157986400-157992200	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr3:157986400-157992400	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr3:157986400-157997200	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr3:157986400-157997200	Weak transcription	Fetal Lung	lung
18	chr3:157986400-157997800	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr3:157986400-157999200	Weak transcription	Adipose Nuclei	Adipose
20	chr3:157986400-158040000	Weak transcription	Primary B cells from cord blood	blood
21	chr3:157987600-157996000	Weak transcription	K562	blood
22	chr3:157988200-157992400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr3:157988200-157993800	Weak transcription	Aorta	Aorta
24	chr3:157988200-157993800	Weak transcription	Left Ventricle	heart
25	chr3:157988200-157994000	Weak transcription	Lung	lung
26	chr3:157988200-157999000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr3:157988200-158009600	Weak transcription	Pancreas	Pancrea
28	chr3:157988400-157995600	Weak transcription	Primary hematopoietic stem cells	blood
29	chr3:157988400-157997600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr3:157988400-158001800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr3:157988600-157992400	Weak transcription	GM12878-XiMat	blood
32	chr3:157989800-157990400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr3:157990200-157990400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr3:157990200-157991800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr3:157990200-157995600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr3:157990200-157996000	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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