Variant report

Variant	rs35729903
Chromosome Location	chr19:52666753-52666754
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	chr19:52666474..52666994-chr5:115159269..115159789,2	MCF-7	breast:

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs34513092	0.82[EUR][1000 genomes]
rs35591962	0.82[EUR][1000 genomes]
rs7260582	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1065410	chr19:52103914-52889530	Genic enhancers Enhancers ZNF genes & repeats Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	596 gene(s)	inside rSNPs	diseases
2	esv3366000	chr19:52491073-52842946	Strong transcription ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS 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 miRNA target site	48 gene(s)	inside rSNPs	diseases
3	nsv1066015	chr19:52502213-52890308	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
4	nsv544059	chr19:52502213-52890308	Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
5	esv2762047	chr19:52647312-52668951	Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv817856	chr19:52647893-52668697	ZNF genes & repeats Strong transcription Weak transcription Enhancers Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv580007	chr19:52660279-52693277	Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
8	nsv1059417	chr19:52662380-52703801	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
9	esv2760529	chr19:52662380-52703813	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:52651600-52667200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr19:52653800-52670600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr19:52654000-52667200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr19:52654000-52669000	ZNF genes & repeats	Liver	Liver
5	chr19:52654400-52671600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
6	chr19:52654600-52669200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr19:52656400-52669000	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
8	chr19:52656400-52669200	ZNF genes & repeats	Primary T cells from cord blood	blood
9	chr19:52656600-52667000	ZNF genes & repeats	Fetal Brain Female	brain
10	chr19:52656600-52668200	ZNF genes & repeats	Primary T helper naive cells fromperipheralblood	blood
11	chr19:52656800-52667200	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
12	chr19:52656800-52669200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr19:52659000-52667000	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
14	chr19:52659000-52668600	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr19:52659400-52671800	Strong transcription	Placenta Amnion	Placenta Amnion
16	chr19:52659600-52669000	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
17	chr19:52660000-52669200	Strong transcription	Stomach Smooth Muscle	stomach
18	chr19:52660400-52669200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr19:52660600-52669000	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr19:52661600-52669000	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr19:52661600-52672200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
22	chr19:52661800-52667200	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
23	chr19:52661800-52667200	ZNF genes & repeats	Primary T killer naive cells fromperipheralblood	blood
24	chr19:52661800-52669000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
25	chr19:52662000-52667000	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr19:52662000-52667000	ZNF genes & repeats	Sigmoid Colon	Sigmoid Colon
27	chr19:52662000-52667200	ZNF genes & repeats	Primary B cells from cord blood	blood
28	chr19:52662000-52667200	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 2	blood
29	chr19:52662000-52667200	ZNF genes & repeats	GM12878-XiMat	blood
30	chr19:52662000-52669000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
31	chr19:52662000-52669000	Strong transcription	Brain Inferior Temporal Lobe	brain
32	chr19:52662000-52669000	ZNF genes & repeats	Thymus	Thymus
33	chr19:52662000-52669200	Strong transcription	Skeletal Muscle Female	skeletal muscle
34	chr19:52662000-52669600	Strong transcription	Brain Anterior Caudate	brain
35	chr19:52662000-52671600	Strong transcription	Brain Angular Gyrus	brain
36	chr19:52662000-52672200	Strong transcription	Skeletal Muscle Male	skeletal muscle
37	chr19:52662200-52667200	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr19:52662200-52669000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr19:52662200-52669000	Strong transcription	Brain Hippocampus Middle	brain
40	chr19:52662400-52669000	Strong transcription	Colonic Mucosa	Colon
41	chr19:52662400-52669000	Strong transcription	Pancreas	Pancrea
42	chr19:52662400-52669200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr19:52663000-52669000	Strong transcription	Brain Cingulate Gyrus	brain
44	chr19:52663000-52669200	Strong transcription	Left Ventricle	heart
45	chr19:52663000-52669800	Strong transcription	Duodenum Smooth Muscle	Duodenum
46	chr19:52663000-52670800	Weak transcription	Fetal Heart	heart
47	chr19:52663000-52672800	Strong transcription	Fetal Muscle Trunk	muscle
48	chr19:52663000-52673000	Strong transcription	Adipose Nuclei	Adipose
49	chr19:52663200-52670200	Weak transcription	HSMM	muscle
50	chr19:52663200-52672200	Strong transcription	Ovary	ovary

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