Variant report

Variant	rs641541
Chromosome Location	chr11:86211867-86211868
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:7)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:7 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TEAD4	chr11:86211506-86211902	K562	blood:	n/a	n/a
2	RCOR1	chr11:86211600-86211955	K562	blood:	n/a	n/a
3	EP300	chr11:86211535-86211881	K562	blood:	n/a	n/a
4	TAL1	chr11:86211482-86212250	K562	blood:	n/a	n/a
5	GATA1	chr11:86210553-86212449	PBDE	blood:	n/a	chr11:86211076-86211087 chr11:86210640-86210651
6	TEAD4	chr11:86211452-86212213	K562	blood:	n/a	n/a
7	GATA1	chr11:86211363-86212395	K562	blood:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:86210913..86213504-chr11:86383764..86386048,2	MCF-7	breast:
2	chr11:86193697..86195389-chr11:86211197..86213851,2	MCF-7	breast:
3	chr11:86209967..86211893-chr11:86216678..86219275,2	K562	blood:
4	chr11:86209651..86211899-chr11:86233390..86235647,2	MCF-7	breast:
5	chr11:86209598..86213474-chr11:86222640..86227259,4	K562	blood:
6	chr11:86209488..86213127-chr11:86228780..86231761,3	K562	blood:

No data

Variant related genes	Relation type
ME3	TF binding region

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10751139	0.83[ASN][1000 genomes]
rs10792854	0.81[YRI][hapmap]
rs11234691	0.85[CHB][hapmap];0.90[JPT][hapmap];0.80[ASN][1000 genomes]
rs2446224	0.86[CHB][hapmap]
rs2446225	0.91[CEU][hapmap];0.90[CHB][hapmap]
rs2446230	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2511082	0.85[CHB][hapmap]
rs2511083	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3741004	0.81[YRI][hapmap]
rs4412777	0.81[YRI][hapmap]
rs4944588	0.92[ASN][1000 genomes]
rs579719	1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs582282	1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[YRI][hapmap];0.93[ASN][1000 genomes]
rs583594	0.90[CHB][hapmap]
rs584953	0.88[CEU][hapmap];0.90[CHB][hapmap]
rs587362	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs590750	0.92[ASN][1000 genomes]
rs601646	0.96[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.85[YRI][hapmap]
rs610790	0.96[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs611730	0.96[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs614995	0.92[CEU][hapmap];0.90[CHB][hapmap]
rs616794	0.92[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.87[YRI][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs620054	0.91[ASN][1000 genomes]
rs630454	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs631082	0.92[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap]
rs632873	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs633708	0.95[ASN][1000 genomes]
rs638492	1.00[CHB][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs643414	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs647561	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs651758	0.84[ASN][1000 genomes]
rs653715	0.95[CHB][hapmap];0.86[JPT][hapmap];0.87[YRI][hapmap];0.87[AFR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs658324	1.00[CHB][hapmap];0.91[JPT][hapmap];0.93[ASN][1000 genomes]
rs6592295	0.85[YRI][hapmap]
rs660372	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs661163	0.88[CEU][hapmap];0.90[CHB][hapmap];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs661328	0.81[ASN][1000 genomes]
rs663208	0.95[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs664613	0.96[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs669325	0.83[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.83[AFR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs675775	0.85[CHB][hapmap]
rs676106	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];0.82[YRI][hapmap];0.82[ASN][1000 genomes]
rs677301	1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs677643	0.96[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs679977	0.88[CEU][hapmap];0.90[CHB][hapmap];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs681333	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs683899	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044081	chr11:86133641-86868560	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv541118	chr11:86133641-86868560	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv898056	chr11:86156848-86304402	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86160200-86221000	Weak transcription	Primary T cells from cord blood	blood
2	chr11:86172400-86227000	Weak transcription	Brain Cingulate Gyrus	brain
3	chr11:86187600-86218600	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr11:86189200-86222600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr11:86189600-86221600	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr11:86195200-86222200	Weak transcription	Rectal Smooth Muscle	rectum
7	chr11:86196200-86213600	Weak transcription	Brain Germinal Matrix	brain
8	chr11:86198600-86222800	Weak transcription	Esophagus	oesophagus
9	chr11:86202800-86226400	Weak transcription	Fetal Lung	lung
10	chr11:86204000-86222200	Weak transcription	Colon Smooth Muscle	Colon
11	chr11:86204600-86220000	Weak transcription	Colonic Mucosa	Colon
12	chr11:86206800-86214200	Weak transcription	Fetal Muscle Leg	muscle
13	chr11:86206800-86214600	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr11:86206800-86214800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr11:86207000-86213400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr11:86209000-86214400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr11:86209000-86214400	Weak transcription	HUVEC	blood vessel
18	chr11:86209200-86213000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr11:86209200-86213200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr11:86209200-86213400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr11:86209200-86213400	Weak transcription	Adipose Nuclei	Adipose
22	chr11:86209200-86213800	Weak transcription	Ovary	ovary
23	chr11:86209200-86213800	Weak transcription	Spleen	Spleen
24	chr11:86209200-86214200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr11:86209200-86214400	Weak transcription	Fetal Muscle Trunk	muscle
26	chr11:86209200-86214600	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr11:86209200-86214600	Weak transcription	Osteobl	bone
28	chr11:86209200-86214800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
29	chr11:86209200-86215000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr11:86209200-86216600	Weak transcription	Fetal Stomach	stomach
31	chr11:86209200-86218800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr11:86209200-86219600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr11:86209200-86221200	Weak transcription	NH-A	brain
34	chr11:86209200-86223600	Weak transcription	Brain Angular Gyrus	brain
35	chr11:86209200-86226600	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr11:86209400-86213200	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr11:86209400-86213600	Weak transcription	Aorta	Aorta
38	chr11:86209400-86214400	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr11:86209400-86215000	Weak transcription	HSMMtube	muscle
40	chr11:86209400-86219200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr11:86209400-86220000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr11:86209400-86221600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr11:86209400-86221600	Weak transcription	HSMM	muscle
44	chr11:86209600-86218400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr11:86209600-86221800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr11:86209800-86213600	Weak transcription	Stomach Smooth Muscle	stomach
47	chr11:86209800-86218200	Weak transcription	Brain Inferior Temporal Lobe	brain
48	chr11:86210000-86212800	Enhancers	Fetal Intestine Large	intestine
49	chr11:86210200-86212000	Enhancers	Stomach Mucosa	stomach
50	chr11:86210200-86213000	Enhancers	Fetal Intestine Small	intestine

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