Variant report

Variant	rs2869444
Chromosome Location	chr4:87371774-87371775
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	chr4:87359364..87361993-chr4:87370921..87372902,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs11097111	0.91[ASN][1000 genomes]
rs11938088	0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs11939109	0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs12503051	0.94[CHB][hapmap];0.93[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12508801	0.93[JPT][hapmap];0.83[ASN][1000 genomes]
rs12511114	0.84[ASN][1000 genomes]
rs12511135	0.84[ASN][1000 genomes]
rs12512698	0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs12644920	0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs12649400	0.89[ASN][1000 genomes]
rs17011731	0.93[JPT][hapmap]
rs17011843	0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs17011890	0.89[CHB][hapmap];0.93[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17011950	0.94[CHB][hapmap];0.93[JPT][hapmap];0.92[ASN][1000 genomes]
rs2199307	0.93[JPT][hapmap]
rs2904095	0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs2904105	0.84[ASN][1000 genomes]
rs35334656	0.84[ASN][1000 genomes]
rs4235079	0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs4235080	0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs4488910	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4693145	0.84[ASN][1000 genomes]
rs55642851	0.84[ASN][1000 genomes]
rs56054148	0.84[ASN][1000 genomes]
rs56805412	0.84[ASN][1000 genomes]
rs59277757	0.81[ASN][1000 genomes]
rs60079003	0.84[ASN][1000 genomes]
rs61686149	0.84[ASN][1000 genomes]
rs6531925	0.93[JPT][hapmap]
rs6817640	0.84[ASN][1000 genomes]
rs6829684	0.84[ASN][1000 genomes]
rs6843457	0.84[ASN][1000 genomes]
rs6849834	0.84[ASN][1000 genomes]
rs6856688	0.93[JPT][hapmap]
rs73835402	0.84[ASN][1000 genomes]
rs73838904	0.84[ASN][1000 genomes]
rs73838906	0.84[ASN][1000 genomes]
rs7669675	0.93[JPT][hapmap]
rs7675359	0.84[ASN][1000 genomes]
rs7697335	0.84[ASN][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:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:87342000-87372800	Weak transcription	Aorta	Aorta
2	chr4:87354600-87374000	Weak transcription	Pancreas	Pancrea
3	chr4:87365000-87372600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr4:87365600-87371800	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr4:87368600-87372800	Weak transcription	Brain Hippocampus Middle	brain
6	chr4:87369800-87375600	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr4:87370000-87372200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr4:87370000-87375400	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr4:87370200-87375400	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr4:87370200-87376400	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr4:87370400-87372000	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr4:87370400-87372000	Weak transcription	Fetal Stomach	stomach
13	chr4:87370400-87372600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr4:87370400-87372600	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr4:87370400-87372600	Weak transcription	Right Atrium	heart
16	chr4:87370400-87372800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr4:87370400-87374000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr4:87370400-87374400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr4:87370400-87374400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr4:87370400-87375600	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr4:87370600-87372800	Weak transcription	Esophagus	oesophagus
22	chr4:87370600-87373200	Weak transcription	Dnd41	blood
23	chr4:87370600-87374000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr4:87370600-87375400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
25	chr4:87370600-87376600	Enhancers	HUES48 Cell Line	embryonic stem cell
26	chr4:87370800-87371800	Weak transcription	Stomach Smooth Muscle	stomach
27	chr4:87370800-87372000	Enhancers	H9 Cell Line	embryonic stem cell
28	chr4:87370800-87372600	Enhancers	Fetal Kidney	kidney
29	chr4:87370800-87375200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
30	chr4:87370800-87375800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr4:87371000-87372200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr4:87371000-87373200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr4:87371200-87372600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr4:87371200-87372600	Weak transcription	Brain Substantia Nigra	brain
35	chr4:87371200-87372600	Weak transcription	Ovary	ovary
36	chr4:87371400-87372600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
37	chr4:87371600-87372000	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr4:87371600-87372000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr4:87371600-87372800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr4:87371600-87376800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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