Variant report

Variant	rs7634544
Chromosome Location	chr3:105413238-105413239
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	chr3:105388584..105391376-chr3:105413040..105414567,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs16851398	1.00[AMR][1000 genomes]
rs16851409	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16851417	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16851429	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16851434	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16851455	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16851457	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16851462	0.83[AFR][1000 genomes]
rs16851521	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16851530	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16851542	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16851557	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16851606	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35835913	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55804660	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56323302	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56405245	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60520841	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72993723	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72995636	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72995638	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72995651	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72995660	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72995662	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72995690	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72995701	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72995702	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72997617	0.88[AFR][1000 genomes]
rs72997628	1.00[AMR][1000 genomes]
rs7612706	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877306	chr3:105372196-105495841	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv877307	chr3:105373836-105465189	Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv591242	chr3:105373836-105470134	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv877308	chr3:105373836-105495841	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv877309	chr3:105373836-105542435	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	esv2755185	chr3:105378310-105597310	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv877310	chr3:105409321-105495841	ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105373000-105419600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:105373600-105419600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr3:105375800-105419600	Weak transcription	Colonic Mucosa	Colon
4	chr3:105375800-105464600	Weak transcription	Small Intestine	intestine
5	chr3:105376000-105438200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr3:105376800-105440000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr3:105378000-105420800	Weak transcription	HUVEC	blood vessel
8	chr3:105378000-105455400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr3:105378600-105438600	Weak transcription	Spleen	Spleen
10	chr3:105379000-105437400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr3:105379200-105440400	Weak transcription	Thymus	Thymus
12	chr3:105387200-105420800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr3:105388400-105421000	Weak transcription	Gastric	stomach
14	chr3:105388600-105419800	Weak transcription	Brain Germinal Matrix	brain
15	chr3:105389200-105467200	Weak transcription	Stomach Mucosa	stomach
16	chr3:105393600-105420800	Weak transcription	Colon Smooth Muscle	Colon
17	chr3:105394200-105438800	Weak transcription	NHEK	skin
18	chr3:105396000-105420200	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr3:105396000-105420800	Weak transcription	Brain Angular Gyrus	brain
20	chr3:105396000-105432600	Weak transcription	Pancreas	Pancrea
21	chr3:105396000-105437200	Weak transcription	Psoas Muscle	Psoas
22	chr3:105396000-105437400	Weak transcription	Brain Cingulate Gyrus	brain
23	chr3:105396000-105438200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr3:105396000-105438400	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr3:105396200-105430400	Weak transcription	Fetal Brain Male	brain
26	chr3:105397800-105419600	Weak transcription	Fetal Thymus	thymus
27	chr3:105399600-105419600	Weak transcription	Brain Hippocampus Middle	brain
28	chr3:105399600-105420000	Weak transcription	Right Ventricle	heart
29	chr3:105400000-105437200	Weak transcription	Primary neutrophils fromperipheralblood	blood
30	chr3:105400200-105420600	Weak transcription	Brain Anterior Caudate	brain
31	chr3:105400400-105419600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr3:105400600-105419600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr3:105400600-105419600	Weak transcription	Primary monocytes fromperipheralblood	blood
34	chr3:105400600-105419600	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr3:105400600-105420800	Weak transcription	HUES6 Cell Line	embryonic stem cell
36	chr3:105401000-105413800	Weak transcription	NHDF-Ad	bronchial
37	chr3:105401000-105419600	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr3:105401000-105432200	Weak transcription	Stomach Smooth Muscle	stomach
39	chr3:105401600-105419600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr3:105401600-105419600	Weak transcription	Lung	lung
41	chr3:105401600-105433800	Weak transcription	Placenta Amnion	Placenta Amnion
42	chr3:105401800-105419600	Weak transcription	Fetal Stomach	stomach
43	chr3:105401800-105420200	Weak transcription	Fetal Intestine Small	intestine
44	chr3:105403600-105420800	Weak transcription	Sigmoid Colon	Sigmoid Colon
45	chr3:105405200-105437200	Weak transcription	NHLF	lung
46	chr3:105405400-105420800	Weak transcription	Rectal Smooth Muscle	rectum
47	chr3:105405800-105421000	Weak transcription	Aorta	Aorta
48	chr3:105406200-105420600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
49	chr3:105406400-105416800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
50	chr3:105406600-105415800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood

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