Variant report

Variant	rs7684469
Chromosome Location	chr4:87362893-87362894
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:87362316..87364074-chr4:87371743..87374916,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000109339	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11929783	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11941484	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11946235	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11946258	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35455450	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6824346	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6831576	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6831589	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6845334	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7674832	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7690940	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7693558	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv594786	chr4:87076360-87609320	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
2	nsv999470	chr4:87165663-87514552	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
3	nsv537164	chr4:87165663-87514552	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
4	nsv594787	chr4:87221827-87888667	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	nsv1012836	chr4:87279206-87643558	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer 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:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:87342000-87372800	Weak transcription	Aorta	Aorta
2	chr4:87354200-87369000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr4:87354400-87363000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr4:87354600-87374000	Weak transcription	Pancreas	Pancrea
5	chr4:87361200-87363200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr4:87361200-87364200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr4:87361400-87363000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr4:87361400-87363200	Enhancers	HMEC	breast
9	chr4:87361400-87364400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr4:87361600-87363000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr4:87361600-87363400	Enhancers	Pancreatic Islets	Pancreatic Islet
12	chr4:87361800-87363800	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr4:87361800-87364200	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr4:87362200-87364200	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr4:87362200-87364800	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr4:87362400-87363000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr4:87362400-87363000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr4:87362400-87363000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr4:87362400-87363000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
20	chr4:87362400-87363200	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr4:87362400-87363200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr4:87362400-87363200	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
23	chr4:87362400-87363200	Enhancers	Cortex derived primary cultured neurospheres	brain
24	chr4:87362400-87363400	Enhancers	H9 Cell Line	embryonic stem cell
25	chr4:87362400-87364600	Enhancers	iPS-18 Cell Line	embryonic stem cell
26	chr4:87362400-87365000	Enhancers	H1 Cell Line	embryonic stem cell
27	chr4:87362600-87363000	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
28	chr4:87362600-87363000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr4:87362600-87363000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr4:87362600-87363000	Enhancers	Brain Anterior Caudate	brain
31	chr4:87362600-87363000	Enhancers	Fetal Kidney	kidney
32	chr4:87362600-87363000	Enhancers	GM12878-XiMat	blood
33	chr4:87362600-87363000	Flanking Active TSS	NHEK	skin
34	chr4:87362600-87363200	Flanking Active TSS	A549	lung
35	chr4:87362600-87363600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
36	chr4:87362800-87363000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr4:87362800-87363000	Flanking Active TSS	Brain Hippocampus Middle	brain
38	chr4:87362800-87363000	Enhancers	Stomach Smooth Muscle	stomach
39	chr4:87362800-87363200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr4:87362800-87363200	Enhancers	Brain Cingulate Gyrus	brain
41	chr4:87362800-87363200	Enhancers	Placenta Amnion	Placenta Amnion
42	chr4:87362800-87363200	Enhancers	NH-A	brain
43	chr4:87362800-87364000	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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