Variant report

Variant	rs11969234
Chromosome Location	chr6:110027153-110027154
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:110025954..110027208-chr6:110359665..110362381,41	MCF-7	breast:
2	chr6:110024804..110028000-chr6:110359372..110362087,3	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11961286	0.88[AFR][1000 genomes]
rs11962218	0.88[AFR][1000 genomes]
rs11964742	0.94[AFR][1000 genomes]
rs11968297	0.88[YRI][hapmap];0.88[AFR][1000 genomes]
rs56809191	0.88[AFR][1000 genomes]
rs59198823	0.82[AFR][1000 genomes]
rs59618833	0.88[AFR][1000 genomes]
rs60195688	0.88[AFR][1000 genomes]
rs6568597	0.90[AFR][1000 genomes]
rs6568599	0.90[AFR][1000 genomes]
rs6912438	0.98[AFR][1000 genomes]
rs6920418	0.88[YRI][hapmap];0.98[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949475	chr6:109907936-110160501	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv933105	chr6:109933270-110064342	ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv817322	chr6:109933272-110070574	Strong transcription Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats 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	5 gene(s)	inside rSNPs	diseases
4	nsv830769	chr6:109944334-110078120	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv604485	chr6:109959269-110054486	Weak transcription Enhancers Active TSS Strong transcription Flanking 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	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:110013000-110027400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:110013000-110027400	Weak transcription	Spleen	Spleen
3	chr6:110013000-110057000	Weak transcription	Left Ventricle	heart
4	chr6:110013000-110114400	Weak transcription	Right Ventricle	heart
5	chr6:110013200-110034000	Weak transcription	Fetal Stomach	stomach
6	chr6:110013200-110057000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:110013200-110057000	Weak transcription	Aorta	Aorta
8	chr6:110013400-110038600	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr6:110013600-110056000	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr6:110013600-110056800	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr6:110013800-110029600	Weak transcription	Fetal Lung	lung
12	chr6:110014000-110027400	Weak transcription	Brain Angular Gyrus	brain
13	chr6:110014000-110034400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr6:110014800-110027400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr6:110014800-110027400	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr6:110014800-110034200	Weak transcription	Fetal Intestine Small	intestine
17	chr6:110018800-110034200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr6:110020600-110027800	Enhancers	Primary neutrophils fromperipheralblood	blood
19	chr6:110022200-110028200	Enhancers	Primary monocytes fromperipheralblood	blood
20	chr6:110022600-110029400	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr6:110022800-110027600	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr6:110023800-110027600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr6:110024200-110027400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr6:110024200-110038800	Weak transcription	Thymus	Thymus
25	chr6:110024200-110056400	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr6:110025000-110027800	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr6:110025000-110028000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr6:110025000-110034400	Weak transcription	Lung	lung
29	chr6:110025000-110057000	Weak transcription	Fetal Thymus	thymus
30	chr6:110025400-110029200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
31	chr6:110025800-110028400	Enhancers	Primary B cells from cord blood	blood
32	chr6:110026000-110028400	Enhancers	Primary T cells from cord blood	blood
33	chr6:110026200-110028000	Enhancers	Primary T helper cells fromperipheralblood	blood
34	chr6:110026200-110028000	Enhancers	Brain Hippocampus Middle	brain
35	chr6:110026200-110028200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
36	chr6:110026400-110027200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
37	chr6:110026400-110027600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
38	chr6:110026400-110028200	Enhancers	Adipose Nuclei	Adipose
39	chr6:110026600-110027400	Enhancers	Breast Myoepithelial Primary Cells	Breast
40	chr6:110026600-110028000	Enhancers	Primary B cells from peripheral blood	blood
41	chr6:110026600-110028000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
42	chr6:110026600-110028200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
43	chr6:110026600-110028200	Enhancers	Brain Anterior Caudate	brain
44	chr6:110026600-110028400	Enhancers	Brain Substantia Nigra	brain
45	chr6:110026800-110027200	Weak transcription	Ovary	ovary
46	chr6:110026800-110027200	Weak transcription	Psoas Muscle	Psoas
47	chr6:110026800-110027800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr6:110026800-110028400	Enhancers	Primary hematopoietic stem cells	blood
49	chr6:110027000-110027400	Weak transcription	Brain Cingulate Gyrus	brain
50	chr6:110027000-110027400	Weak transcription	Colon Smooth Muscle	Colon

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