Variant report

Variant	rs3732421
Chromosome Location	chr3:119150089-119150090
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	chr3:119145344..119146916-chr3:119149020..119151478,2	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs1131265	1.00[CHB][hapmap];0.97[CHD][hapmap];0.94[JPT][hapmap];0.94[TSI][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1132200	0.84[CEU][hapmap];0.94[TSI][hapmap];0.90[EUR][1000 genomes]
rs12494314	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12636784	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13078855	1.00[MEX][hapmap];0.81[TSI][hapmap]
rs13092998	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2293370	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2305249	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34844599	0.86[AMR][1000 genomes]
rs57271503	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62264485	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7650774	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9834901	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9843355	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9855065	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.85[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9884090	1.00[ASW][hapmap];0.92[CEU][hapmap];0.94[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]

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	esv3487859	chr3:118570588-119419623	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	esv3487860	chr3:118570588-119419623	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	nsv829694	chr3:119011488-119153579	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119138000-119152400	Weak transcription	Lung	lung
2	chr3:119142400-119150800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:119144400-119150400	ZNF genes & repeats	Liver	Liver
4	chr3:119144600-119152000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr3:119145600-119150200	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr3:119145600-119150200	ZNF genes & repeats	Fetal Kidney	kidney
7	chr3:119145600-119152000	ZNF genes & repeats	Fetal Lung	lung
8	chr3:119145800-119150200	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
9	chr3:119145800-119151000	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
10	chr3:119145800-119151800	Strong transcription	Cortex derived primary cultured neurospheres	brain
11	chr3:119146400-119150400	ZNF genes & repeats	Fetal Muscle Leg	muscle
12	chr3:119146400-119150600	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr3:119146400-119150600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
14	chr3:119146600-119150200	ZNF genes & repeats	A549	lung
15	chr3:119146600-119150600	ZNF genes & repeats	Dnd41	blood
16	chr3:119146600-119151000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr3:119147000-119150600	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
18	chr3:119147000-119151800	Strong transcription	NH-A	brain
19	chr3:119147000-119152800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr3:119147000-119179000	Strong transcription	Osteobl	bone
21	chr3:119147200-119150400	ZNF genes & repeats	Fetal Intestine Large	intestine
22	chr3:119147200-119150400	ZNF genes & repeats	GM12878-XiMat	blood
23	chr3:119147200-119150600	ZNF genes & repeats	Fetal Brain Female	brain
24	chr3:119147200-119152200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
25	chr3:119147200-119180400	Weak transcription	Stomach Mucosa	stomach
26	chr3:119147400-119150200	ZNF genes & repeats	NHEK	skin
27	chr3:119147400-119150400	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
28	chr3:119147400-119150400	ZNF genes & repeats	Sigmoid Colon	Sigmoid Colon
29	chr3:119147400-119150600	ZNF genes & repeats	Primary T cells from cord blood	blood
30	chr3:119147400-119151000	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr3:119147400-119152800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr3:119147400-119157200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr3:119147400-119179200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr3:119147600-119151000	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
35	chr3:119147600-119157200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr3:119147600-119157400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr3:119147600-119157400	Strong transcription	Fetal Thymus	thymus
38	chr3:119147800-119150200	ZNF genes & repeats	Psoas Muscle	Psoas
39	chr3:119147800-119150600	Strong transcription	Colon Smooth Muscle	Colon
40	chr3:119147800-119151000	Strong transcription	Left Ventricle	heart
41	chr3:119147800-119151200	Strong transcription	HSMMtube	muscle
42	chr3:119147800-119154400	Strong transcription	K562	blood
43	chr3:119147800-119157000	Strong transcription	Muscle Satellite Cultured Cells	--
44	chr3:119147800-119157000	Strong transcription	Placenta Amnion	Placenta Amnion
45	chr3:119147800-119157200	Strong transcription	Rectal Smooth Muscle	rectum
46	chr3:119147800-119157400	Strong transcription	Placenta	Placenta
47	chr3:119147800-119157400	Strong transcription	Skeletal Muscle Female	skeletal muscle
48	chr3:119147800-119157600	Strong transcription	Rectal Mucosa Donor 29	rectum
49	chr3:119147800-119157600	Strong transcription	Rectal Mucosa Donor 31	rectum
50	chr3:119147800-119159400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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