Variant report

Variant	rs11820040
Chromosome Location	chr11:57369957-57369958
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	chr11:57363269..57366608-chr11:57366625..57370345,5	K562	blood:

Variant related genes	Relation type
ENSG00000149131	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10750866	0.82[ASN][1000 genomes]
rs10896631	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10896632	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11229063	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11229066	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11229067	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11229075	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11229077	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11229078	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11229080	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11603020	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11606677	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11606706	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11607122	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1647395	0.82[ASN][1000 genomes]
rs2081361	0.82[ASN][1000 genomes]
rs28362934	0.93[ASN][1000 genomes]
rs28362947	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28362948	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28362949	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28362950	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28362951	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34052104	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3758918	0.93[ASN][1000 genomes]
rs3758919	0.93[ASN][1000 genomes]
rs3824988	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4926	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55649513	0.82[ASN][1000 genomes]
rs55920079	0.82[ASN][1000 genomes]
rs7102271	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7117878	0.82[AFR][1000 genomes]
rs7117896	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73480556	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][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	nsv1044030	chr11:57073395-58035564	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Enhancers 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 miRNA target site	136 gene(s)	inside rSNPs	diseases
2	nsv541047	chr11:57073395-58035564	Active TSS Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
3	nsv530621	chr11:57139699-57703639	Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Weak transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	109 gene(s)	inside rSNPs	diseases
4	nsv832163	chr11:57299354-57481050	Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
5	nsv1040913	chr11:57315006-57696122	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	93 gene(s)	inside rSNPs	diseases
6	nsv897588	chr11:57364381-57373478	Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:57366200-57379000	Weak transcription	Gastric	stomach
2	chr11:57366400-57373200	Weak transcription	Spleen	Spleen
3	chr11:57366400-57381800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr11:57366400-57385800	Weak transcription	Esophagus	oesophagus
5	chr11:57366600-57373200	Weak transcription	Brain Angular Gyrus	brain
6	chr11:57366600-57378800	Weak transcription	Colonic Mucosa	Colon
7	chr11:57366600-57382600	Weak transcription	Brain Substantia Nigra	brain
8	chr11:57366600-57384400	Weak transcription	Pancreas	Pancrea
9	chr11:57366800-57371400	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr11:57366800-57371400	Weak transcription	Placenta	Placenta
11	chr11:57366800-57371400	Weak transcription	Fetal Thymus	thymus
12	chr11:57366800-57373200	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr11:57366800-57373800	Weak transcription	Brain Hippocampus Middle	brain
14	chr11:57366800-57380800	Weak transcription	Brain Anterior Caudate	brain
15	chr11:57366800-57381600	Weak transcription	Rectal Smooth Muscle	rectum
16	chr11:57366800-57381600	Weak transcription	Osteobl	bone
17	chr11:57366800-57386600	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr11:57366800-57388800	Weak transcription	Brain Cingulate Gyrus	brain
19	chr11:57367000-57373200	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr11:57367000-57373400	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr11:57367000-57387400	Weak transcription	NHDF-Ad	bronchial
22	chr11:57367200-57371400	Weak transcription	Primary hematopoietic stem cells	blood
23	chr11:57367200-57371600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr11:57367200-57371800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr11:57367200-57371800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr11:57367200-57372000	Weak transcription	Fetal Muscle Leg	muscle
27	chr11:57367200-57373200	Weak transcription	Fetal Brain Female	brain
28	chr11:57367200-57373200	Weak transcription	NHLF	lung
29	chr11:57367200-57373400	Weak transcription	HUES6 Cell Line	embryonic stem cell
30	chr11:57367200-57373400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr11:57367200-57373400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr11:57367200-57373800	Weak transcription	Colon Smooth Muscle	Colon
33	chr11:57367200-57378800	Weak transcription	Right Ventricle	heart
34	chr11:57367200-57379200	Weak transcription	Fetal Intestine Large	intestine
35	chr11:57367200-57380600	Weak transcription	Fetal Brain Male	brain
36	chr11:57367200-57380600	Weak transcription	Fetal Kidney	kidney
37	chr11:57367400-57371600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
38	chr11:57367400-57373000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr11:57367400-57373200	Weak transcription	Stomach Smooth Muscle	stomach
40	chr11:57367400-57373400	Weak transcription	Brain Germinal Matrix	brain
41	chr11:57367400-57373600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
42	chr11:57367400-57377400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
43	chr11:57367400-57381600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr11:57367600-57370600	Strong transcription	Adipose Nuclei	Adipose
45	chr11:57367600-57370800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
46	chr11:57367600-57371400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
47	chr11:57367800-57371000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr11:57368000-57372600	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr11:57368000-57373000	Weak transcription	Ovary	ovary
50	chr11:57368000-57373200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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