Variant report

Variant	rs9943496
Chromosome Location	chr11:85393819-85393820
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	chr11:85373957..85377643-chr11:85392159..85394287,3	K562	blood:
2	chr11:85374551..85377717-chr11:85388541..85395552,6	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CCDC89-5	chr11:85393760-85393906	NONHSAT023441

Variant related genes	Relation type
ENSG00000137504	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11826413	0.82[YRI][hapmap]
rs12099140	0.95[YRI][hapmap];1.00[AMR][1000 genomes]
rs17148259	0.95[YRI][hapmap];1.00[AMR][1000 genomes]
rs17148267	0.95[YRI][hapmap];1.00[AMR][1000 genomes]
rs17148301	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17148334	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55650249	1.00[AMR][1000 genomes]
rs58967928	1.00[AMR][1000 genomes]
rs7113272	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7116307	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][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	nsv1051155	chr11:85006564-85721261	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv541110	chr11:85006564-85721261	Enhancers Strong transcription Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
3	esv2758279	chr11:85180480-85603988	Flanking Active TSS Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	esv2759845	chr11:85180480-85603988	Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
5	nsv898048	chr11:85206156-85404138	Flanking Active TSS Genic enhancers Active TSS Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:85392400-85396200	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr11:85392400-85396200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr11:85393000-85394200	Active TSS	Brain Inferior Temporal Lobe	brain
4	chr11:85393000-85394400	Active TSS	Brain Germinal Matrix	brain
5	chr11:85393200-85394000	Active TSS	Cortex derived primary cultured neurospheres	brain
6	chr11:85393200-85394000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr11:85393200-85394000	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr11:85393200-85394000	Active TSS	Fetal Brain Male	brain
9	chr11:85393200-85394000	Active TSS	Skeletal Muscle Male	skeletal muscle
10	chr11:85393200-85394000	Active TSS	NHLF	lung
11	chr11:85393200-85394200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr11:85393200-85394200	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
13	chr11:85393200-85394200	Active TSS	Primary T helper cells PMA-I stimulated	--
14	chr11:85393200-85394200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr11:85393200-85394200	Active TSS	Brain Cingulate Gyrus	brain
16	chr11:85393200-85394200	Active TSS	Brain Hippocampus Middle	brain
17	chr11:85393200-85394200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
18	chr11:85393200-85394200	Active TSS	Duodenum Mucosa	Duodenum
19	chr11:85393200-85394200	Active TSS	Fetal Kidney	kidney
20	chr11:85393200-85394200	Active TSS	Fetal Stomach	stomach
21	chr11:85393200-85394200	Active TSS	Fetal Thymus	thymus
22	chr11:85393200-85394200	Active TSS	A549	lung
23	chr11:85393200-85394200	Active TSS	HSMMtube	muscle
24	chr11:85393200-85394200	Active TSS	Monocytes-CD14+_RO01746	blood
25	chr11:85393200-85394200	Active TSS	NHDF-Ad	bronchial
26	chr11:85393200-85394400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr11:85393200-85394400	Active TSS	Primary B cells from cord blood	blood
28	chr11:85393200-85394400	Active TSS	Brain Anterior Caudate	brain
29	chr11:85393200-85394400	Active TSS	Pancreatic Islets	Pancreatic Islet
30	chr11:85393200-85394400	Active TSS	Rectal Smooth Muscle	rectum
31	chr11:85393400-85394000	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
32	chr11:85393400-85394000	Active TSS	Primary hematopoietic stem cells short term culture	blood
33	chr11:85393400-85394000	Active TSS	Primary T helper naive cells from peripheral blood	blood
34	chr11:85393400-85394000	Active TSS	Fetal Muscle Leg	muscle
35	chr11:85393400-85394000	Flanking Active TSS	Placenta	Placenta
36	chr11:85393400-85394000	Active TSS	Sigmoid Colon	Sigmoid Colon
37	chr11:85393400-85394000	Active TSS	Small Intestine	intestine
38	chr11:85393400-85394000	Active TSS	Stomach Mucosa	stomach
39	chr11:85393400-85394000	Bivalent/Poised TSS	HepG2	liver
40	chr11:85393400-85394000	Active TSS	HSMM	muscle
41	chr11:85393400-85394200	Active TSS	Breast Myoepithelial Primary Cells	Breast
42	chr11:85393400-85394200	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
43	chr11:85393400-85394200	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
44	chr11:85393400-85394200	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
45	chr11:85393400-85394200	Active TSS	Primary T killer naive cells fromperipheralblood	blood
46	chr11:85393400-85394200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr11:85393400-85394200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr11:85393400-85394200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr11:85393400-85394200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr11:85393400-85394200	Flanking Active TSS	Liver	Liver

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