Variant report

Variant	rs3887026
Chromosome Location	chr2:153193270-153193271
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:153193156..153194815-chr2:153197354..153200252,2	MCF-7	breast:
2	chr2:153030097..153032269-chr2:153191350..153193391,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115145	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10803946	0.86[CHB][hapmap]
rs13034665	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2002558	1.00[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];1.00[ASN][1000 genomes]
rs2003332	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2003333	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2345878	0.83[AMR][1000 genomes]
rs28394649	0.86[CHB][hapmap]
rs35953368	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4035882	0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4311022	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4519464	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4664100	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs5008216	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55860423	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs56111292	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56187233	0.85[AMR][1000 genomes]
rs6722740	1.00[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];1.00[ASN][1000 genomes]
rs6725954	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6759036	0.85[AMR][1000 genomes]
rs7583872	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7584000	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7585911	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7589218	0.86[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3693434	chr2:152998467-153208713	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv834419	chr2:153179420-153381476	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	esv3375546	chr2:153190731-153193579	Flanking Active TSS Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:153191000-153193400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr2:153191000-153193400	Active TSS	Colon Smooth Muscle	Colon
3	chr2:153191000-153193600	Active TSS	Duodenum Smooth Muscle	Duodenum
4	chr2:153191000-153193800	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr2:153191000-153194000	Active TSS	Pancreatic Islets	Pancreatic Islet
6	chr2:153191000-153194400	Active TSS	ES-I3 Cell Line	embryonic stem cell
7	chr2:153191000-153194600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
8	chr2:153191200-153193400	Active TSS	Fetal Kidney	kidney
9	chr2:153191200-153193400	Bivalent/Poised TSS	Thymus	Thymus
10	chr2:153191200-153193400	Active TSS	A549	lung
11	chr2:153191200-153193600	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr2:153191200-153193600	Active TSS	iPS-15b Cell Line	embryonic stem cell
13	chr2:153191200-153193600	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr2:153191200-153193600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
15	chr2:153191200-153193600	Active TSS	Breast Myoepithelial Primary Cells	Breast
16	chr2:153191200-153193600	Active TSS	Aorta	Aorta
17	chr2:153191200-153193600	Active TSS	Left Ventricle	heart
18	chr2:153191200-153193600	Active TSS	Psoas Muscle	Psoas
19	chr2:153191200-153193600	Active TSS	Rectal Mucosa Donor 31	rectum
20	chr2:153191200-153193600	Active TSS	Right Atrium	heart
21	chr2:153191200-153193800	Active TSS	H1 Cell Line	embryonic stem cell
22	chr2:153191200-153193800	Active TSS	iPS-20b Cell Line	embryonic stem cell
23	chr2:153191200-153193800	Active TSS	Fetal Lung	lung
24	chr2:153191200-153193800	Active TSS	Ovary	ovary
25	chr2:153191200-153193800	Active TSS	HMEC	breast
26	chr2:153191200-153194000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
27	chr2:153191200-153194000	Active TSS	HUES48 Cell Line	embryonic stem cell
28	chr2:153191200-153194000	Active TSS	Fetal Intestine Small	intestine
29	chr2:153191200-153194200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr2:153191200-153194200	Active TSS	Brain Cingulate Gyrus	brain
31	chr2:153191200-153194200	Active TSS	Brain Inferior Temporal Lobe	brain
32	chr2:153191200-153194200	Active TSS	Brain Substantia Nigra	brain
33	chr2:153191200-153194200	Active TSS	NHLF	lung
34	chr2:153191200-153194400	Active TSS	Fetal Brain Female	brain
35	chr2:153191200-153194600	Active TSS	Placenta	Placenta
36	chr2:153191200-153194800	Active TSS	Brain Anterior Caudate	brain
37	chr2:153191400-153193400	Active TSS	H9 Cell Line	embryonic stem cell
38	chr2:153191400-153193400	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr2:153191400-153193400	Active TSS	Fetal Intestine Large	intestine
40	chr2:153191400-153193400	Active TSS	Osteobl	bone
41	chr2:153191400-153193600	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr2:153191400-153193800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr2:153191400-153193800	Active TSS	HUES64 Cell Line	embryonic stem cell
44	chr2:153191400-153193800	Active TSS	Fetal Stomach	stomach
45	chr2:153191400-153193800	Active TSS	Gastric	stomach
46	chr2:153191400-153194000	Bivalent/Poised TSS	HepG2	liver
47	chr2:153191400-153194400	Active TSS	Lung	lung
48	chr2:153191400-153194600	Active TSS	Brain Hippocampus Middle	brain
49	chr2:153191400-153194800	Active TSS	Brain Angular Gyrus	brain
50	chr2:153191600-153193400	Active TSS	NHDF-Ad	bronchial

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