Variant report

Variant	rs3799145
Chromosome Location	chr6:165747913-165747914
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	chr6:165746371..165749114-chr6:165759117..165761315,2	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs13211591	0.87[EUR][1000 genomes]
rs1333493	0.84[EUR][1000 genomes]
rs1740809	0.86[EUR][1000 genomes]
rs1740813	0.83[EUR][1000 genomes]
rs17784909	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4588664	0.89[EUR][1000 genomes]
rs71571409	0.86[EUR][1000 genomes]
rs73026296	0.91[EUR][1000 genomes]
rs73028216	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9459375	0.89[EUR][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	nsv432982	chr6:165528589-165835589	Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv605245	chr6:165542686-165845903	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv1031648	chr6:165544569-165841029	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv432983	chr6:165554403-165851585	Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	esv3417270	chr6:165682773-166023032	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv508438	chr6:165703355-165760649	Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv886928	chr6:165722345-166197889	Strong transcription Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:165740400-165754200	Weak transcription	Fetal Brain Male	brain
2	chr6:165740400-165760800	Weak transcription	Fetal Kidney	kidney
3	chr6:165740600-165749000	Weak transcription	Placenta	Placenta
4	chr6:165741600-165754000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr6:165741800-165748800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:165743200-165753000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr6:165744000-165749000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr6:165744000-165769000	Weak transcription	Ovary	ovary
9	chr6:165744600-165751000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr6:165744800-165749000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:165744800-165763600	Weak transcription	Brain Anterior Caudate	brain
12	chr6:165744800-165801200	Weak transcription	Hela-S3	cervix
13	chr6:165745000-165748800	Weak transcription	Fetal Lung	lung
14	chr6:165745200-165770000	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr6:165745400-165763000	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr6:165745600-165802800	Weak transcription	Fetal Heart	heart
17	chr6:165746000-165749800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr6:165746200-165749600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr6:165746200-165749600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr6:165746200-165749600	Strong transcription	Left Ventricle	heart
21	chr6:165746400-165749400	Strong transcription	Brain Germinal Matrix	brain
22	chr6:165746400-165749800	Strong transcription	Right Ventricle	heart
23	chr6:165746600-165748000	ZNF genes & repeats	Spleen	Spleen
24	chr6:165746800-165748400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr6:165747000-165748400	Weak transcription	Fetal Stomach	stomach
26	chr6:165747200-165749200	Weak transcription	Fetal Muscle Trunk	muscle
27	chr6:165747400-165748800	Weak transcription	HSMM	muscle
28	chr6:165747400-165749000	Weak transcription	Fetal Muscle Leg	muscle
29	chr6:165747400-165763000	Weak transcription	Fetal Brain Female	brain
30	chr6:165747400-165802600	Weak transcription	HSMMtube	muscle
31	chr6:165747600-165752600	Weak transcription	Gastric	stomach
32	chr6:165747600-165763200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr6:165747600-165853000	Weak transcription	A549	lung
34	chr6:165747800-165748200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr6:165747800-165760800	Weak transcription	Brain Hippocampus Middle	brain

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