Variant report

Variant	rs11917869
Chromosome Location	chr3:113036268-113036269
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs11919091	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11920233	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11920468	1.00[AMR][1000 genomes]
rs11920795	1.00[AMR][1000 genomes]
rs11921249	1.00[AMR][1000 genomes]
rs11922003	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11924899	1.00[AMR][1000 genomes]
rs11925633	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11926656	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11929188	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1463639	0.87[YRI][hapmap]
rs16845109	0.87[YRI][hapmap]
rs16845110	0.82[YRI][hapmap];1.00[AMR][1000 genomes]
rs16860700	1.00[AMR][1000 genomes]
rs16860716	1.00[AMR][1000 genomes]
rs16860732	1.00[AMR][1000 genomes]
rs16860748	0.85[YRI][hapmap];1.00[AMR][1000 genomes]
rs16860752	1.00[AMR][1000 genomes]
rs16860782	1.00[AMR][1000 genomes]
rs16860800	1.00[AMR][1000 genomes]
rs16860854	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16860875	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16860995	0.87[YRI][hapmap]
rs16861019	1.00[AMR][1000 genomes]
rs16861059	0.87[YRI][hapmap];1.00[AMR][1000 genomes]
rs16861115	1.00[AMR][1000 genomes]
rs4082653	1.00[AMR][1000 genomes]
rs7430385	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv829677	chr3:112857075-113038987	Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	nsv1013506	chr3:112890608-113680951	Weak transcription Bivalent/Poised TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 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	chr3:112996400-113046400	Weak transcription	Duodenum Mucosa	Duodenum
2	chr3:113001200-113044600	Weak transcription	Fetal Kidney	kidney
3	chr3:113007200-113043400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr3:113013600-113065200	Weak transcription	Left Ventricle	heart
5	chr3:113020800-113041200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr3:113023400-113041600	Weak transcription	Brain Hippocampus Middle	brain
7	chr3:113024200-113038000	Weak transcription	Colonic Mucosa	Colon
8	chr3:113024600-113046600	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr3:113024600-113081000	Weak transcription	Stomach Smooth Muscle	stomach
10	chr3:113028600-113053400	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr3:113032800-113038600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr3:113034000-113036600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr3:113034000-113037000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr3:113034200-113037000	Strong transcription	Primary T helper cells fromperipheralblood	blood
15	chr3:113034400-113046800	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr3:113034800-113044600	Weak transcription	Liver	Liver
17	chr3:113034800-113044600	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr3:113034800-113044800	Weak transcription	A549	lung
19	chr3:113034800-113048400	Weak transcription	Fetal Lung	lung
20	chr3:113034800-113053600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr3:113034800-113054000	Weak transcription	Psoas Muscle	Psoas
22	chr3:113035000-113036800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
23	chr3:113035000-113036800	Strong transcription	Primary T cells from cord blood	blood
24	chr3:113035000-113040800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr3:113035000-113044600	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr3:113035000-113050800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr3:113035000-113052000	Weak transcription	HSMMtube	muscle
28	chr3:113035000-113053000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr3:113035200-113044800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr3:113035400-113036800	ZNF genes & repeats	Esophagus	oesophagus
31	chr3:113035400-113044600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr3:113035400-113045000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr3:113035400-113052800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr3:113035800-113036400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr3:113035800-113036400	Strong transcription	Brain Anterior Caudate	brain
36	chr3:113035800-113036600	Strong transcription	Duodenum Smooth Muscle	Duodenum
37	chr3:113035800-113036600	Strong transcription	Fetal Intestine Large	intestine
38	chr3:113035800-113036600	ZNF genes & repeats	Fetal Muscle Leg	muscle
39	chr3:113035800-113036600	Strong transcription	Thymus	Thymus
40	chr3:113035800-113036800	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr3:113035800-113036800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr3:113035800-113036800	Strong transcription	Cortex derived primary cultured neurospheres	brain
43	chr3:113035800-113036800	ZNF genes & repeats	Fetal Intestine Small	intestine
44	chr3:113035800-113036800	ZNF genes & repeats	Fetal Stomach	stomach
45	chr3:113035800-113036800	ZNF genes & repeats	Lung	lung
46	chr3:113035800-113036800	Strong transcription	Ovary	ovary
47	chr3:113035800-113046400	Weak transcription	Colon Smooth Muscle	Colon
48	chr3:113036000-113036400	Weak transcription	Primary hematopoietic stem cells	blood
49	chr3:113036000-113036600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr3:113036000-113036600	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood

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