Variant report

Variant	rs3789753
Chromosome Location	chr4:102220884-102220885
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:102219978..102222828-chr4:102224431..102227610,3	MCF-7	breast:
2	chr4:102211391..102213772-chr4:102219486..102221204,2	MCF-7	breast:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs17030831	0.85[CEU][hapmap]
rs17030887	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs17030900	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs4699109	0.81[EUR][1000 genomes]
rs4699110	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs62305938	0.81[EUR][1000 genomes]
rs62305940	0.81[EUR][1000 genomes]
rs6829044	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931418	chr4:101500167-102443207	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv999741	chr4:102009017-102454115	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
3	nsv537199	chr4:102009017-102454115	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1004766	chr4:102009017-102713765	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
5	nsv537200	chr4:102009017-102713765	Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1011351	chr4:102056024-102450302	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
7	nsv879676	chr4:102202285-102340930	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:102207600-102226400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr4:102210200-102225800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr4:102212200-102226200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr4:102212600-102227200	Weak transcription	Primary T cells from cord blood	blood
5	chr4:102212800-102221000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr4:102212800-102227200	Weak transcription	Primary B cells from peripheral blood	blood
7	chr4:102212800-102228000	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr4:102213400-102221000	Weak transcription	Stomach Mucosa	stomach
9	chr4:102214800-102225600	Weak transcription	Brain Anterior Caudate	brain
10	chr4:102214800-102227200	Weak transcription	Gastric	stomach
11	chr4:102214800-102227200	Weak transcription	Psoas Muscle	Psoas
12	chr4:102215000-102227200	Weak transcription	Colon Smooth Muscle	Colon
13	chr4:102215000-102227400	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr4:102215000-102232600	Weak transcription	Pancreas	Pancrea
15	chr4:102215400-102236600	Weak transcription	Primary B cells from cord blood	blood
16	chr4:102216200-102227400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr4:102217000-102221000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr4:102219000-102221600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
19	chr4:102219200-102227400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr4:102220200-102222200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
21	chr4:102220400-102221800	Enhancers	Primary T helper cells fromperipheralblood	blood
22	chr4:102220600-102222200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
23	chr4:102220800-102221000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr4:102220800-102221400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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