Variant report

Variant	rs1100860
Chromosome Location	chr6:36052084-36052085
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs1100856	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1100857	0.86[CEU][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1100859	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17715303	1.00[YRI][hapmap]
rs2815806	0.86[CEU][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457879	0.86[CEU][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs707994	0.86[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73729674	1.00[ASN][1000 genomes]
rs851004	0.86[CEU][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs851008	0.86[CEU][hapmap];0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs851009	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs851011	0.86[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs851012	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs851015	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs851016	0.86[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs851021	0.83[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs851022	0.86[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs851023	0.86[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs851025	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs916344	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs916345	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3363467	chr6:35820920-36222197	Enhancers Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36022000-36088800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:36039800-36062000	Weak transcription	Stomach Mucosa	stomach
3	chr6:36040600-36053400	Strong transcription	Primary T helper cells fromperipheralblood	blood
4	chr6:36040800-36052600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr6:36040800-36053400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr6:36040800-36053600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr6:36041200-36053400	Strong transcription	Fetal Thymus	thymus
8	chr6:36041200-36053600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr6:36041400-36053000	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr6:36041600-36053200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr6:36042400-36052600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr6:36043000-36052200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr6:36043000-36053800	Strong transcription	Fetal Lung	lung
14	chr6:36043200-36052200	Strong transcription	Hela-S3	cervix
15	chr6:36043200-36052800	Strong transcription	Primary T helper cells PMA-I stimulated	--
16	chr6:36043200-36053000	Strong transcription	Rectal Mucosa Donor 31	rectum
17	chr6:36043200-36062400	Weak transcription	Small Intestine	intestine
18	chr6:36043400-36052800	Strong transcription	Placenta	Placenta
19	chr6:36043400-36053000	Strong transcription	Rectal Mucosa Donor 29	rectum
20	chr6:36043600-36053000	Strong transcription	Duodenum Mucosa	Duodenum
21	chr6:36043600-36053600	Strong transcription	Primary T cells fromperipheralblood	blood
22	chr6:36043600-36053600	Strong transcription	Adipose Nuclei	Adipose
23	chr6:36043800-36052200	Strong transcription	HMEC	breast
24	chr6:36044200-36053200	Strong transcription	HepG2	liver
25	chr6:36044200-36055000	Strong transcription	Primary neutrophils fromperipheralblood	blood
26	chr6:36044800-36053600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr6:36045000-36053800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr6:36045600-36052200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr6:36045600-36052800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr6:36045600-36053000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr6:36045600-36053000	Strong transcription	Fetal Intestine Large	intestine
32	chr6:36045800-36052200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr6:36045800-36052800	Strong transcription	Duodenum Smooth Muscle	Duodenum
34	chr6:36045800-36053400	Strong transcription	Liver	Liver
35	chr6:36046000-36052400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
36	chr6:36046200-36052600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr6:36046600-36052200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr6:36046600-36052600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr6:36046800-36052200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr6:36047400-36052600	Strong transcription	Brain Cingulate Gyrus	brain
41	chr6:36047400-36053200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr6:36047800-36052400	Strong transcription	Skeletal Muscle Female	skeletal muscle
43	chr6:36047800-36053000	Strong transcription	Colon Smooth Muscle	Colon
44	chr6:36048000-36052200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr6:36048000-36052600	Strong transcription	Brain Anterior Caudate	brain
46	chr6:36048000-36052600	Strong transcription	Fetal Brain Male	brain
47	chr6:36048000-36052600	Strong transcription	Placenta Amnion	Placenta Amnion
48	chr6:36048200-36053400	Strong transcription	Muscle Satellite Cultured Cells	--
49	chr6:36048400-36053000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr6:36048400-36053800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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