Variant report

Variant	rs11823888
Chromosome Location	chr11:66465787-66465788
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:66464114..66465985-chr17:80055942..80057717,2	MCF-7	breast:
2	chr11:66463755..66465983-chr11:66469374..66472774,3	MCF-7	breast:
3	chr11:66464627..66468274-chr11:66508302..66512299,4	MCF-7	breast:
4	chr11:66464609..66468025-chr11:66478918..66483442,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169710	Chromatin interaction
ENSG00000173715	Chromatin interaction
ENSG00000239553	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11821197	1.00[ASW][hapmap];0.82[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs11822858	1.00[AFR][1000 genomes]
rs11825713	1.00[AFR][1000 genomes]
rs11825882	1.00[AFR][1000 genomes]
rs11827300	1.00[ASW][hapmap];0.82[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs11828258	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs11828658	0.82[AFR][1000 genomes]
rs2511007	1.00[MKK][hapmap];0.95[AFR][1000 genomes]
rs34275473	1.00[AFR][1000 genomes]
rs7104885	0.86[AFR][1000 genomes]
rs7104906	1.00[AFR][1000 genomes]
rs7105623	1.00[ASW][hapmap];0.82[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7110020	1.00[ASW][hapmap];1.00[MKK][hapmap]
rs7114229	1.00[ASW][hapmap];1.00[MKK][hapmap]
rs7118311	1.00[AFR][1000 genomes]
rs7120487	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7120560	1.00[MKK][hapmap]
rs7121308	1.00[AFR][1000 genomes]
rs7131531	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7925899	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7929435	1.00[AFR][1000 genomes]
rs7940057	0.95[AFR][1000 genomes]
rs7946173	1.00[ASW][hapmap];0.82[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7951710	1.00[AFR][1000 genomes]
rs9666734	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv522277	chr11:66234023-66493825	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer 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 target site	94 gene(s)	inside rSNPs	diseases
2	nsv897789	chr11:66372390-66634397	Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	117 gene(s)	inside rSNPs	diseases
3	nsv518919	chr11:66409409-66468469	Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
4	nsv897790	chr11:66414915-66626234	Transcr. at gene 5' and 3' Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
5	nsv897791	chr11:66442855-66533469	Weak transcription Strong transcription Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
6	nsv427891	chr11:66456140-66606701	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:66446200-66465800	Weak transcription	A549	lung
2	chr11:66446200-66468000	Weak transcription	Lung	lung
3	chr11:66446200-66468600	Weak transcription	Right Ventricle	heart
4	chr11:66446200-66480200	Weak transcription	Fetal Kidney	kidney
5	chr11:66446200-66485800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr11:66450800-66467000	Strong transcription	Fetal Brain Female	brain
7	chr11:66451000-66467000	Strong transcription	Brain Germinal Matrix	brain
8	chr11:66452200-66485600	Strong transcription	HUES48 Cell Line	embryonic stem cell
9	chr11:66452800-66473800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr11:66453000-66483400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
11	chr11:66456400-66494600	Weak transcription	Right Atrium	heart
12	chr11:66458600-66469200	Strong transcription	Placenta Amnion	Placenta Amnion
13	chr11:66459000-66472200	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr11:66459200-66467000	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr11:66460800-66467800	Weak transcription	Gastric	stomach
16	chr11:66461000-66465800	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr11:66461800-66466000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr11:66462000-66466000	Weak transcription	Fetal Intestine Small	intestine
19	chr11:66462000-66466000	Enhancers	Fetal Thymus	thymus
20	chr11:66462000-66467800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr11:66462600-66466600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr11:66462600-66484000	Weak transcription	Brain Substantia Nigra	brain
23	chr11:66462800-66466000	Weak transcription	Placenta	Placenta
24	chr11:66462800-66466600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr11:66462800-66467200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
26	chr11:66462800-66472200	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr11:66462800-66481000	Weak transcription	HMEC	breast
28	chr11:66462800-66484400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr11:66463000-66469600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr11:66463000-66472000	Weak transcription	Stomach Smooth Muscle	stomach
31	chr11:66463000-66485000	Weak transcription	Fetal Muscle Trunk	muscle
32	chr11:66463200-66470200	Strong transcription	H1 Cell Line	embryonic stem cell
33	chr11:66463400-66466800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr11:66463400-66469400	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr11:66463400-66470200	Strong transcription	Cortex derived primary cultured neurospheres	brain
36	chr11:66463400-66471800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr11:66463600-66466000	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr11:66463600-66466000	Strong transcription	Esophagus	oesophagus
39	chr11:66463600-66466200	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr11:66463600-66466800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr11:66463600-66467600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr11:66463600-66467800	Strong transcription	Liver	Liver
43	chr11:66463600-66468000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr11:66463600-66468800	Strong transcription	Brain Cingulate Gyrus	brain
45	chr11:66463600-66469400	Strong transcription	Pancreas	Pancrea
46	chr11:66463600-66469600	Strong transcription	Brain Inferior Temporal Lobe	brain
47	chr11:66463600-66469800	Strong transcription	HUES64 Cell Line	embryonic stem cell
48	chr11:66463600-66470000	Strong transcription	HUES6 Cell Line	embryonic stem cell
49	chr11:66463600-66470000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
50	chr11:66463800-66469600	Strong transcription	Brain Angular Gyrus	brain

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