Variant report

Variant	rs353599
Chromosome Location	chr11:35109750-35109751
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	chr11:35109556..35112078-chr11:35117913..35120120,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PDHX-3	chr11:35108965-35110133	NONHSAT018772

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

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs12796719	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs353591	0.81[CEU][hapmap];0.83[CHB][hapmap];0.84[AMR][1000 genomes]
rs353594	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs353601	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs353605	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045837	chr11:34893992-35395190	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
2	nsv430371	chr11:34975067-35111292	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv540999	chr11:35021936-35185471	Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
4	esv2758263	chr11:35029933-35226784	Genic enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
5	esv2759818	chr11:35029933-35238578	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	nsv541000	chr11:35053717-35185471	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
7	nsv541001	chr11:35053717-35224624	Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
8	esv2757437	chr11:35067482-35238578	Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
9	esv2752912	chr11:35074167-35238578	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
10	nsv508623	chr11:35094933-35203363	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
11	nsv541002	chr11:35101282-35224624	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
12	nsv975326	chr11:35103908-35125981	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:35103200-35110600	Enhancers	Fetal Muscle Leg	muscle
2	chr11:35104000-35110400	Enhancers	Psoas Muscle	Psoas
3	chr11:35104600-35110000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr11:35105000-35111000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr11:35105200-35109800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr11:35105200-35110000	Enhancers	Skeletal Muscle Male	skeletal muscle
7	chr11:35105400-35111800	Enhancers	Primary T helper cells fromperipheralblood	blood
8	chr11:35105400-35112400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
9	chr11:35105400-35112800	Enhancers	Primary T cells from cord blood	blood
10	chr11:35105600-35109800	Weak transcription	Brain Anterior Caudate	brain
11	chr11:35105600-35110800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
12	chr11:35105800-35112000	Enhancers	Primary T helper naive cells from peripheral blood	blood
13	chr11:35106000-35110600	Enhancers	Colon Smooth Muscle	Colon
14	chr11:35106200-35110000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr11:35107200-35110000	Enhancers	Fetal Lung	lung
16	chr11:35107200-35110600	Enhancers	Fetal Stomach	stomach
17	chr11:35107800-35109800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr11:35107800-35110400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr11:35108400-35112600	Weak transcription	Fetal Muscle Trunk	muscle
20	chr11:35108600-35110200	Enhancers	Dnd41	blood
21	chr11:35108800-35109800	Weak transcription	Stomach Smooth Muscle	stomach
22	chr11:35108800-35110000	Enhancers	Muscle Satellite Cultured Cells	--
23	chr11:35108800-35110200	Enhancers	Primary monocytes fromperipheralblood	blood
24	chr11:35108800-35110200	Enhancers	HUVEC	blood vessel
25	chr11:35108800-35110600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
26	chr11:35108800-35110600	Enhancers	HSMM	muscle
27	chr11:35108800-35110800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
28	chr11:35108800-35111400	Enhancers	Primary hematopoietic stem cells short term culture	blood
29	chr11:35108800-35111400	Enhancers	Adipose Nuclei	Adipose
30	chr11:35109000-35109800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
31	chr11:35109000-35110000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr11:35109000-35110000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr11:35109000-35110000	Enhancers	Fetal Kidney	kidney
34	chr11:35109000-35110000	Enhancers	Thymus	Thymus
35	chr11:35109000-35110000	Enhancers	HMEC	breast
36	chr11:35109000-35110200	Enhancers	Primary neutrophils fromperipheralblood	blood
37	chr11:35109000-35110200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr11:35109000-35110200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr11:35109000-35110200	Enhancers	Fetal Thymus	thymus
40	chr11:35109000-35110400	Enhancers	Duodenum Smooth Muscle	Duodenum
41	chr11:35109000-35110400	Enhancers	NHDF-Ad	bronchial
42	chr11:35109000-35110600	Enhancers	Osteobl	bone
43	chr11:35109000-35111000	Enhancers	Primary T cells fromperipheralblood	blood
44	chr11:35109000-35111000	Enhancers	Primary T killer memory cells from peripheral blood	blood
45	chr11:35109000-35111000	Enhancers	Placenta	Placenta
46	chr11:35109000-35111000	Enhancers	Pancreas	Pancrea
47	chr11:35109000-35111600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr11:35109000-35112600	Enhancers	Primary B cells from cord blood	blood
49	chr11:35109000-35113000	Enhancers	Primary B cells from peripheral blood	blood
50	chr11:35109200-35109800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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