Variant report

Variant	rs376090662
Chromosome Location	chr3:52027438-52027439
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:52026551..52028922-chr3:52257127..52259842,2	K562	blood:
2	chr3:52025976..52031164-chr3:52185902..52190126,6	K562	blood:
3	chr3:51974147..51980389-chr3:52024451..52030996,12	K562	blood:
4	chr3:52005327..52011372-chr3:52027090..52031188,9	MCF-7	breast:
5	chr3:52026096..52028947-chr3:52173334..52176505,3	K562	blood:
6	chr3:51987614..51990073-chr3:52025987..52029912,3	K562	blood:
7	chr3:52006271..52012102-chr3:52024917..52032079,14	MCF-7	breast:
8	chr3:51974392..51977854-chr3:52027120..52030701,3	MCF-7	breast:
9	chr3:52026823..52031380-chr3:52087204..52091486,4	K562	blood:
10	chr3:52027010..52028947-chr3:52174417..52176505,2	K562	blood:
11	chr3:51974624..51978885-chr3:52015984..52028227,23	K562	blood:

No data

Variant related genes	Relation type
ENSG00000114779	Chromatin interaction
ENSG00000164086	Chromatin interaction
ENSG00000041880	Chromatin interaction
ENSG00000114786	Chromatin interaction
ENSG00000164087	Chromatin interaction
ENSG00000248487	Chromatin interaction
ENSG00000114767	Chromatin interaction
ENSG00000180929	Chromatin interaction
ENSG00000272762	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv520211	chr3:51772347-52166147	Flanking Bivalent TSS/Enh Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv1012847	chr3:51811062-52056727	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	68 gene(s)	inside rSNPs	diseases
3	nsv536571	chr3:51811062-52056727	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	68 gene(s)	inside rSNPs	diseases
4	nsv1003453	chr3:51962081-52099441	Active TSS Genic enhancers Strong transcription Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
5	esv1804090	chr3:51962081-52140591	Genic enhancers Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
6	esv1835339	chr3:51962081-52140591	Flanking Active TSS Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
7	nsv1003581	chr3:51973395-52108645	Active TSS Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
8	nsv1001062	chr3:51973395-52134638	Weak transcription Flanking Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
9	nsv876780	chr3:51981021-52101799	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
10	nsv519445	chr3:52004317-52367932	Bivalent/Poised TSS Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	134 gene(s)	inside rSNPs	diseases
11	nsv963318	chr3:52027076-52028224	Genic enhancers Transcr. at gene 5' and 3' Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52017800-52027600	Weak transcription	Fetal Brain Male	brain
2	chr3:52017800-52028200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr3:52017800-52028200	Weak transcription	Aorta	Aorta
4	chr3:52017800-52028600	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr3:52018000-52028000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr3:52018200-52027600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr3:52018400-52028400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr3:52018400-52028400	Weak transcription	Brain Angular Gyrus	brain
9	chr3:52021200-52028000	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr3:52022400-52028000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr3:52023800-52028600	Weak transcription	Right Atrium	heart
12	chr3:52024000-52027600	Strong transcription	Fetal Stomach	stomach
13	chr3:52025400-52027600	Strong transcription	Primary B cells from peripheral blood	blood
14	chr3:52025400-52027800	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
15	chr3:52025400-52028200	Genic enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr3:52025400-52028200	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
17	chr3:52025400-52028200	Strong transcription	Sigmoid Colon	Sigmoid Colon
18	chr3:52025400-52028400	Strong transcription	HUES64 Cell Line	embryonic stem cell
19	chr3:52025400-52028400	Strong transcription	Primary monocytes fromperipheralblood	blood
20	chr3:52025400-52028400	Genic enhancers	Fetal Intestine Large	intestine
21	chr3:52025400-52028600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr3:52025400-52028600	Strong transcription	Rectal Smooth Muscle	rectum
23	chr3:52025600-52027600	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr3:52025600-52027800	Strong transcription	Stomach Smooth Muscle	stomach
25	chr3:52025600-52028000	Genic enhancers	Primary T helper cells PMA-I stimulated	--
26	chr3:52025600-52028200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr3:52025600-52028200	Strong transcription	Primary neutrophils fromperipheralblood	blood
28	chr3:52025600-52028200	Strong transcription	Lung	lung
29	chr3:52025600-52028200	Weak transcription	Stomach Mucosa	stomach
30	chr3:52025600-52028200	Genic enhancers	HepG2	liver
31	chr3:52025600-52028600	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr3:52025600-52028600	Genic enhancers	Duodenum Mucosa	Duodenum
33	chr3:52025600-52028600	Strong transcription	Thymus	Thymus
34	chr3:52025800-52027600	Strong transcription	Spleen	Spleen
35	chr3:52025800-52028000	Strong transcription	Fetal Intestine Small	intestine
36	chr3:52025800-52028200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
37	chr3:52025800-52028200	Strong transcription	Right Ventricle	heart
38	chr3:52025800-52028400	Strong transcription	HUES48 Cell Line	embryonic stem cell
39	chr3:52025800-52029000	Genic enhancers	Primary T cells fromperipheralblood	blood
40	chr3:52025800-52029200	Genic enhancers	Primary T helper cells fromperipheralblood	blood
41	chr3:52026000-52028200	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr3:52026000-52028200	Strong transcription	Primary B cells from cord blood	blood
43	chr3:52026000-52028200	Strong transcription	Duodenum Smooth Muscle	Duodenum
44	chr3:52026000-52028200	Strong transcription	Left Ventricle	heart
45	chr3:52026000-52028400	Genic enhancers	Primary hematopoietic stem cells	blood
46	chr3:52026000-52028600	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr3:52026000-52028600	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
48	chr3:52026000-52028600	Genic enhancers	Fetal Muscle Leg	muscle
49	chr3:52026000-52029200	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
50	chr3:52026000-52029400	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin01	Skin

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