Variant report

Variant	rs7639907
Chromosome Location	chr3:111390125-111390126
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	chr3:111388505..111391497-chr3:111391977..111394861,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000240891	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1355768	1.00[EUR][1000 genomes]
rs1513330	1.00[CEU][hapmap];0.81[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17202775	0.85[CEU][hapmap]
rs17202782	0.85[CEU][hapmap]
rs1996107	0.94[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs2895386	0.87[AMR][1000 genomes]
rs3817260	0.85[CEU][hapmap];1.00[YRI][hapmap]
rs4428148	1.00[ASW][hapmap];0.82[CEU][hapmap];0.97[GIH][hapmap];0.89[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4682289	1.00[CEU][hapmap]
rs56172864	0.87[AMR][1000 genomes]
rs56306480	0.87[AMR][1000 genomes]
rs6768092	0.87[AMR][1000 genomes]
rs6807632	0.91[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73852849	0.87[AMR][1000 genomes]
rs7612391	0.85[CEU][hapmap]
rs7637536	0.88[AMR][1000 genomes]
rs9836430	0.85[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111385000-111392600	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr3:111385400-111392600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr3:111386400-111390400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr3:111386800-111392400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr3:111387000-111392400	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr3:111387000-111392600	Enhancers	Primary T cells from cord blood	blood
7	chr3:111387000-111392600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr3:111387000-111392600	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr3:111387800-111392600	Weak transcription	GM12878-XiMat	blood
10	chr3:111388000-111390200	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr3:111388000-111391600	Weak transcription	Primary hematopoietic stem cells	blood
12	chr3:111388000-111392000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr3:111388000-111392200	Weak transcription	Thymus	Thymus
14	chr3:111388000-111392400	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr3:111388200-111391000	Weak transcription	Primary B cells from cord blood	blood
16	chr3:111388200-111391000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr3:111388200-111391400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr3:111388200-111391800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr3:111388200-111391800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr3:111388200-111392200	Weak transcription	Primary B cells from peripheral blood	blood
21	chr3:111388200-111392400	Weak transcription	Duodenum Mucosa	Duodenum
22	chr3:111388200-111392600	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr3:111388400-111391000	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr3:111388400-111391000	Weak transcription	Fetal Thymus	thymus
25	chr3:111388400-111392200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr3:111388400-111392400	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr3:111388400-111392400	Weak transcription	Colon Smooth Muscle	Colon
28	chr3:111388400-111392600	Weak transcription	HUVEC	blood vessel
29	chr3:111388600-111390200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr3:111388600-111390200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
31	chr3:111388600-111392600	Weak transcription	Fetal Intestine Large	intestine
32	chr3:111388600-111392600	Weak transcription	Fetal Intestine Small	intestine
33	chr3:111388800-111392400	Weak transcription	Hela-S3	cervix
34	chr3:111388800-111392600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr3:111389200-111392400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr3:111389200-111392600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr3:111389200-111392600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr3:111389200-111392600	Weak transcription	NHDF-Ad	bronchial
39	chr3:111389200-111392600	Weak transcription	NHLF	lung
40	chr3:111389200-111392800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr3:111389200-111392800	Weak transcription	HSMMtube	muscle
42	chr3:111389200-111393000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr3:111389400-111392400	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr3:111389400-111392400	Weak transcription	HMEC	breast
45	chr3:111389400-111392400	Weak transcription	NHEK	skin
46	chr3:111389400-111392600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr3:111389400-111392600	Weak transcription	A549	lung
48	chr3:111389400-111392800	Weak transcription	HSMM	muscle
49	chr3:111389600-111392200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr3:111389600-111392600	Weak transcription	NH-A	brain

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