Variant report

Variant	rs3798906
Chromosome Location	chr6:161458931-161458932
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:161455058..161457220-chr6:161458708..161460603,2	MCF-7	breast:
2	chr6:161412246..161414439-chr6:161458049..161460881,2	K562	blood:
3	chr6:161452727..161456793-chr6:161458799..161464157,7	K562	blood:
4	chr6:161457964..161460200-chr6:161515366..161517538,2	MCF-7	breast:
5	chr6:161457923..161460607-chr6:161464113..161468101,4	K562	blood:
6	chr6:161457923..161459864-chr6:161464113..161466599,2	K562	blood:

Variant related genes	Relation type
ENSG00000085511	Chromatin interaction
ENSG00000272841	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs13204034	0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13206940	0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13207108	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2468	0.81[ASN][1000 genomes]
rs28385633	0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs35292081	0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6925141	0.81[ASN][1000 genomes]
rs71565784	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs71565785	0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73784705	0.96[EUR][1000 genomes];0.81[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	nsv1030045	chr6:161359075-161562255	Enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv886817	chr6:161371621-161846654	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	esv3381361	chr6:161373617-161864101	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv1023982	chr6:161382188-161549831	Enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161414400-161469600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr6:161416600-161475200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr6:161433200-161459200	Weak transcription	Fetal Stomach	stomach
4	chr6:161433400-161459000	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr6:161433600-161459600	Weak transcription	Brain Germinal Matrix	brain
6	chr6:161434000-161459000	Weak transcription	Brain Hippocampus Middle	brain
7	chr6:161435000-161490400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr6:161440200-161459200	Weak transcription	Placenta	Placenta
9	chr6:161440600-161459600	Weak transcription	Esophagus	oesophagus
10	chr6:161441200-161459800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr6:161442600-161459200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:161442800-161459600	Weak transcription	Fetal Intestine Small	intestine
13	chr6:161442800-161463400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr6:161443800-161459000	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr6:161443800-161459000	Weak transcription	Right Ventricle	heart
16	chr6:161443800-161462000	Weak transcription	Spleen	Spleen
17	chr6:161443800-161465600	Weak transcription	Right Atrium	heart
18	chr6:161443800-161478600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr6:161446200-161459000	Weak transcription	Fetal Heart	heart
20	chr6:161448800-161472400	Weak transcription	A549	lung
21	chr6:161449000-161494400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr6:161449200-161459200	Weak transcription	Left Ventricle	heart
23	chr6:161449200-161459600	Weak transcription	Lung	lung
24	chr6:161449200-161459800	Weak transcription	Pancreas	Pancrea
25	chr6:161449200-161461600	Weak transcription	Gastric	stomach
26	chr6:161450400-161459000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr6:161450600-161459000	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr6:161450600-161462000	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr6:161450800-161461600	Weak transcription	Primary neutrophils fromperipheralblood	blood
30	chr6:161451400-161459200	Weak transcription	Brain Cingulate Gyrus	brain
31	chr6:161451400-161462000	Weak transcription	Aorta	Aorta
32	chr6:161451400-161462000	Weak transcription	Stomach Mucosa	stomach
33	chr6:161451800-161459800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr6:161452400-161459200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr6:161452800-161489400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr6:161453400-161459000	Weak transcription	Colon Smooth Muscle	Colon
37	chr6:161453600-161470400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
38	chr6:161453600-161506600	Weak transcription	Small Intestine	intestine
39	chr6:161454000-161461800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
40	chr6:161454400-161459600	Weak transcription	Brain Anterior Caudate	brain
41	chr6:161454800-161462000	Strong transcription	Primary T cells fromperipheralblood	blood
42	chr6:161454800-161466000	Strong transcription	Dnd41	blood
43	chr6:161455000-161463800	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr6:161455000-161466000	Strong transcription	Primary T helper cells fromperipheralblood	blood
45	chr6:161455200-161462200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr6:161455200-161464400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr6:161455200-161467200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr6:161455200-161495800	Weak transcription	Fetal Brain Male	brain
49	chr6:161455400-161466200	Strong transcription	Primary T cells from cord blood	blood
50	chr6:161455600-161462400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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