Variant report

Variant	rs6843141
Chromosome Location	chr4:106155751-106155752
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:106060509..106062315-chr4:106155058..106156816,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000251259	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10003144	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10006632	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10006721	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10008189	0.85[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.83[MKK][hapmap];0.81[YRI][hapmap];0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10017522	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10018267	0.92[ASN][1000 genomes]
rs10022126	0.97[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10022891	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10023701	0.92[ASN][1000 genomes]
rs10026237	0.92[ASN][1000 genomes]
rs10027791	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];1.00[ASN][1000 genomes]
rs10033325	0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11932794	0.80[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs11938493	0.92[ASN][1000 genomes]
rs11941838	1.00[ASN][1000 genomes]
rs11943394	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11944001	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11944085	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11947617	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12505746	0.89[ASN][1000 genomes]
rs2017763	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs28394039	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs28655620	0.82[ASN][1000 genomes]
rs28707121	0.92[ASN][1000 genomes]
rs3733609	0.80[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3796927	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4235413	0.92[ASN][1000 genomes]
rs55793049	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs58862751	0.94[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs59339947	0.95[ASN][1000 genomes]
rs59806714	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs60886348	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6826102	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6831247	1.00[ASN][1000 genomes]
rs6831445	1.00[ASN][1000 genomes]
rs6833560	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs6835030	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6839609	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6857812	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.88[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs72955167	1.00[ASN][1000 genomes]
rs72955198	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs73836047	0.92[ASN][1000 genomes]
rs73836048	0.92[ASN][1000 genomes]
rs73836052	0.92[ASN][1000 genomes]
rs73836055	0.92[ASN][1000 genomes]
rs73838074	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7662448	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7696287	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7696337	0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7698398	0.92[ASN][1000 genomes]
rs7698522	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs7700148	0.86[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];1.00[ASN][1000 genomes]
rs871215	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs931653	0.83[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs9985622	0.92[ASN][1000 genomes]
rs9993497	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9997323	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9998069	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461609	chr4:105869548-106366209	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv470063	chr4:105869548-106366209	Transcr. at gene 5' and 3' Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv595007	chr4:105869548-106366209	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv879698	chr4:106155751-106309224	Weak transcription Genic enhancers Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106113600-106173800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr4:106113600-106195800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr4:106136000-106157400	Weak transcription	Right Ventricle	heart
4	chr4:106142000-106190800	Weak transcription	Small Intestine	intestine
5	chr4:106145600-106167400	Weak transcription	NHDF-Ad	bronchial
6	chr4:106145800-106155800	Weak transcription	Brain Anterior Caudate	brain
7	chr4:106146800-106157400	Weak transcription	Fetal Heart	heart
8	chr4:106147000-106156200	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr4:106147800-106156800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr4:106148000-106192800	Weak transcription	Psoas Muscle	Psoas
11	chr4:106150200-106191400	Weak transcription	HUVEC	blood vessel
12	chr4:106150600-106155800	Weak transcription	K562	blood
13	chr4:106151600-106155800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr4:106153400-106164600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr4:106153600-106155800	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr4:106154000-106157400	Weak transcription	HMEC	breast
17	chr4:106154000-106166200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
18	chr4:106154000-106198800	Weak transcription	Hela-S3	cervix
19	chr4:106154200-106164600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr4:106154400-106156000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr4:106154600-106156200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr4:106154600-106157800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr4:106154600-106161200	Strong transcription	Primary hematopoietic stem cells	blood
24	chr4:106154800-106158800	Strong transcription	Fetal Thymus	thymus
25	chr4:106155000-106156600	Weak transcription	NH-A	brain
26	chr4:106155000-106156800	ZNF genes & repeats	GM12878-XiMat	blood
27	chr4:106155000-106157000	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
28	chr4:106155000-106157000	Strong transcription	Sigmoid Colon	Sigmoid Colon
29	chr4:106155000-106157200	Genic enhancers	Primary B cells from peripheral blood	blood
30	chr4:106155000-106157200	Strong transcription	Primary T cells fromperipheralblood	blood
31	chr4:106155000-106157800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr4:106155000-106157800	Strong transcription	Fetal Muscle Leg	muscle
33	chr4:106155000-106158200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr4:106155000-106158200	Strong transcription	Primary T helper cells PMA-I stimulated	--
35	chr4:106155000-106158200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr4:106155000-106158200	Strong transcription	Fetal Stomach	stomach
37	chr4:106155000-106158200	Strong transcription	HepG2	liver
38	chr4:106155000-106158400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr4:106155000-106158400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr4:106155000-106158400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
41	chr4:106155000-106158400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
42	chr4:106155000-106158600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr4:106155000-106159800	Strong transcription	Primary T cells from cord blood	blood
44	chr4:106155000-106160800	Strong transcription	Fetal Lung	lung
45	chr4:106155000-106161000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr4:106155000-106163000	Strong transcription	Fetal Muscle Trunk	muscle
47	chr4:106155000-106166400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
48	chr4:106155000-106168800	Strong transcription	Primary neutrophils fromperipheralblood	blood
49	chr4:106155000-106169000	Strong transcription	Primary monocytes fromperipheralblood	blood
50	chr4:106155000-106176600	Strong transcription	Monocytes-CD14+_RO01746	blood

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