Variant report

Variant	rs28969395
Chromosome Location	chr7:99257786-99257787
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	chr7:99256740..99260670-chr7:99260944..99264080,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000106258	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs28365076	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41300725	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41301655	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41303952	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs45571732	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs45613141	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55817676	0.89[AFR][1000 genomes]
rs55863343	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56145886	0.89[AFR][1000 genomes]
rs58895239	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73405282	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73406803	1.00[AMR][1000 genomes]
rs73408528	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73408555	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73408566	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73408573	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73410637	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73410646	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv482532	chr7:99205906-99363886	Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:99228400-99258000	Weak transcription	Colon Smooth Muscle	Colon
2	chr7:99228400-99258800	Weak transcription	Ovary	ovary
3	chr7:99229200-99267400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr7:99229200-99275000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr7:99229400-99257800	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr7:99229800-99260200	Weak transcription	Left Ventricle	heart
7	chr7:99229800-99272600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr7:99230400-99272000	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr7:99230800-99258000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr7:99231800-99258000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr7:99231800-99258000	Weak transcription	Brain Substantia Nigra	brain
12	chr7:99231800-99260200	Weak transcription	K562	blood
13	chr7:99231800-99264600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr7:99231800-99268000	Weak transcription	Brain Anterior Caudate	brain
15	chr7:99231800-99268600	Weak transcription	HepG2	liver
16	chr7:99232000-99258600	Weak transcription	Primary B cells from cord blood	blood
17	chr7:99232000-99275000	Weak transcription	A549	lung
18	chr7:99233000-99266000	Weak transcription	NHEK	skin
19	chr7:99235800-99276400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr7:99236800-99258400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr7:99236800-99260400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr7:99236800-99263000	Weak transcription	Placenta	Placenta
23	chr7:99237000-99272200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr7:99237200-99258000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr7:99237200-99258800	Weak transcription	Primary B cells from peripheral blood	blood
26	chr7:99237200-99264800	Weak transcription	Right Ventricle	heart
27	chr7:99241000-99268800	Weak transcription	Primary T cells fromperipheralblood	blood
28	chr7:99241600-99264600	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr7:99242200-99258800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr7:99242200-99261400	Weak transcription	HSMMtube	muscle
31	chr7:99242400-99272400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr7:99242800-99261000	Weak transcription	Aorta	Aorta
33	chr7:99242800-99267600	Weak transcription	GM12878-XiMat	blood
34	chr7:99243000-99278800	Weak transcription	Brain Angular Gyrus	brain
35	chr7:99243200-99267600	Weak transcription	Brain Cingulate Gyrus	brain
36	chr7:99243600-99276800	Weak transcription	Stomach Smooth Muscle	stomach
37	chr7:99247800-99266800	Weak transcription	Primary T helper cells fromperipheralblood	blood
38	chr7:99250400-99258200	Weak transcription	Primary T cells from cord blood	blood
39	chr7:99251600-99264000	Weak transcription	Psoas Muscle	Psoas
40	chr7:99251600-99276400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr7:99253400-99258000	Weak transcription	Lung	lung
42	chr7:99254400-99275400	Weak transcription	Fetal Stomach	stomach
43	chr7:99255000-99258000	Weak transcription	Small Intestine	intestine
44	chr7:99255800-99277000	Weak transcription	Fetal Brain Male	brain
45	chr7:99256200-99263400	Weak transcription	HSMM	muscle
46	chr7:99256400-99258600	ZNF genes & repeats	Fetal Intestine Small	intestine
47	chr7:99256600-99259200	ZNF genes & repeats	Liver	Liver
48	chr7:99256600-99270200	Strong transcription	Duodenum Mucosa	Duodenum
49	chr7:99257000-99258600	ZNF genes & repeats	Sigmoid Colon	Sigmoid Colon
50	chr7:99257000-99259200	ZNF genes & repeats	Fetal Intestine Large	intestine

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