Variant report

Variant	rs9859493
Chromosome Location	chr3:20153106-20153107
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11920809	1.00[AMR][1000 genomes]
rs13316456	1.00[AMR][1000 genomes]
rs9816790	1.00[AMR][1000 genomes]
rs9848075	1.00[AMR][1000 genomes]
rs9852192	1.00[AMR][1000 genomes]
rs9883459	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1833006	chr3:19562271-20389045	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv1010613	chr3:19942032-20461486	Weak transcription Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	esv1826030	chr3:19972766-20170581	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats 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 target site	15 gene(s)	inside rSNPs	diseases
4	esv1826830	chr3:19982972-20632072	Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	esv1829542	chr3:20009231-20384627	Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
6	nsv834627	chr3:20068115-20227975	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised 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	17 gene(s)	inside rSNPs	diseases
7	nsv433359	chr3:20090908-20587572	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
8	nsv470450	chr3:20096735-20389045	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer 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	17 gene(s)	inside rSNPs	diseases
9	nsv1001006	chr3:20110743-20752628	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats 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	22 gene(s)	inside rSNPs	diseases
10	nsv536512	chr3:20110743-20752628	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
11	esv1829018	chr3:20116077-20596244	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
12	esv1827700	chr3:20119716-20489086	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised 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	18 gene(s)	inside rSNPs	diseases
13	esv1830036	chr3:20121828-20278275	Active TSS Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
14	esv1830599	chr3:20121828-20375643	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats 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 miRNA target site	16 gene(s)	inside rSNPs	diseases
15	esv1828816	chr3:20136508-20389045	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
16	esv3394910	chr3:20150394-20203576	Weak transcription Genic enhancers Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
17	esv3334928	chr3:20150414-20203546	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
18	esv1832674	chr3:20152772-20605302	Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:93 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:20116400-20194800	Weak transcription	NHDF-Ad	bronchial
2	chr3:20123200-20153200	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr3:20128200-20175800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:20135200-20173800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr3:20137400-20156600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr3:20137800-20153200	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr3:20138800-20156400	Weak transcription	Rectal Smooth Muscle	rectum
8	chr3:20139000-20164000	Weak transcription	Small Intestine	intestine
9	chr3:20139800-20161000	Weak transcription	Fetal Intestine Small	intestine
10	chr3:20141000-20153200	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr3:20141200-20167400	Weak transcription	HSMMtube	muscle
12	chr3:20141200-20222400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr3:20142600-20189400	Weak transcription	Fetal Brain Male	brain
14	chr3:20144600-20162000	Weak transcription	Fetal Heart	heart
15	chr3:20146000-20156400	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr3:20146000-20156400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr3:20146200-20153200	Weak transcription	Brain Anterior Caudate	brain
18	chr3:20146200-20154200	Weak transcription	Primary hematopoietic stem cells	blood
19	chr3:20146200-20156400	Weak transcription	Brain Angular Gyrus	brain
20	chr3:20146400-20157600	Weak transcription	Fetal Brain Female	brain
21	chr3:20146400-20163400	Weak transcription	Brain Germinal Matrix	brain
22	chr3:20147400-20169600	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr3:20147600-20156200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr3:20147600-20194200	Weak transcription	Dnd41	blood
25	chr3:20147800-20153800	Weak transcription	Brain Substantia Nigra	brain
26	chr3:20148000-20167000	Weak transcription	GM12878-XiMat	blood
27	chr3:20148800-20159200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr3:20150000-20153200	Weak transcription	Psoas Muscle	Psoas
29	chr3:20150000-20159800	Strong transcription	Primary T cells from cord blood	blood
30	chr3:20150200-20158600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr3:20150600-20153400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr3:20150600-20156400	Weak transcription	K562	blood
33	chr3:20150800-20159400	Strong transcription	Fetal Thymus	thymus
34	chr3:20150800-20166200	Strong transcription	Monocytes-CD14+_RO01746	blood
35	chr3:20151000-20153200	Weak transcription	Primary B cells from cord blood	blood
36	chr3:20151000-20153200	Weak transcription	Placenta	Placenta
37	chr3:20151000-20196800	Weak transcription	Stomach Mucosa	stomach
38	chr3:20151200-20153200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr3:20151200-20159800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr3:20151200-20179000	Weak transcription	Fetal Kidney	kidney
41	chr3:20151600-20158800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr3:20151600-20175800	Strong transcription	Primary T helper cells fromperipheralblood	blood
43	chr3:20151800-20154400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr3:20152000-20182800	Weak transcription	Colonic Mucosa	Colon
45	chr3:20152200-20162600	Strong transcription	Thymus	Thymus
46	chr3:20152400-20159400	Strong transcription	Stomach Smooth Muscle	stomach
47	chr3:20152400-20162600	Strong transcription	Cortex derived primary cultured neurospheres	brain
48	chr3:20152600-20153600	Strong transcription	Colon Smooth Muscle	Colon
49	chr3:20152600-20154600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
50	chr3:20152600-20159200	Strong transcription	Duodenum Smooth Muscle	Duodenum

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