Variant report

Variant	rs3131549
Chromosome Location	chr1:186353461-186353462
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:186351786..186353546-chr1:186357204..186358890,2	K562	blood:
2	chr1:186306761..186309218-chr1:186351656..186353666,2	K562	blood:
3	chr1:186352524..186355241-chr1:186393663..186395812,2	K562	blood:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10798039	1.00[AMR][1000 genomes]
rs10911846	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12128607	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[AMR][1000 genomes]
rs12134934	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12136874	1.00[AMR][1000 genomes]
rs12139138	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12139964	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3108517	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3115751	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3115752	0.82[CEU][hapmap]
rs3115753	1.00[CEU][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3115760	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3119332	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3119333	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3119334	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3124809	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3124810	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3124812	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3124813	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3124815	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3131553	1.00[AMR][1000 genomes]
rs74134828	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7526540	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][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	nsv1004481	chr1:186095854-186750968	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv535223	chr1:186095854-186750968	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv548399	chr1:186295930-186353461	Bivalent/Poised TSS Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	26 gene(s)	inside rSNPs	diseases
4	esv1822818	chr1:186301447-186441585	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv1012164	chr1:186323867-186565995	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
6	esv2762201	chr1:186323879-186566007	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:186345400-186358000	Weak transcription	Left Ventricle	heart
2	chr1:186345400-186358600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr1:186345400-186359000	Weak transcription	Lung	lung
4	chr1:186345400-186371600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr1:186345400-186371600	Weak transcription	Esophagus	oesophagus
6	chr1:186345400-186371600	Weak transcription	Gastric	stomach
7	chr1:186345400-186390600	Weak transcription	Small Intestine	intestine
8	chr1:186345400-186398200	Weak transcription	Spleen	Spleen
9	chr1:186345800-186361200	Weak transcription	Aorta	Aorta
10	chr1:186345800-186377400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr1:186346000-186366800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr1:186346200-186357400	Weak transcription	Rectal Smooth Muscle	rectum
13	chr1:186346200-186357800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr1:186346200-186357800	Weak transcription	Brain Anterior Caudate	brain
15	chr1:186346200-186357800	Weak transcription	Fetal Kidney	kidney
16	chr1:186346200-186359000	Weak transcription	Brain Cingulate Gyrus	brain
17	chr1:186346200-186359000	Weak transcription	Ovary	ovary
18	chr1:186346200-186359000	Weak transcription	Thymus	Thymus
19	chr1:186346200-186360600	Weak transcription	Brain Substantia Nigra	brain
20	chr1:186346200-186361200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr1:186346200-186361200	Weak transcription	Pancreas	Pancrea
22	chr1:186346200-186361400	Weak transcription	Right Ventricle	heart
23	chr1:186346200-186365200	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr1:186346200-186365200	Weak transcription	Psoas Muscle	Psoas
25	chr1:186346200-186380400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr1:186346200-186388400	Weak transcription	Colonic Mucosa	Colon
27	chr1:186346400-186354400	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr1:186346400-186357800	Weak transcription	Brain Hippocampus Middle	brain
29	chr1:186346400-186359400	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr1:186346400-186359400	Weak transcription	Colon Smooth Muscle	Colon
31	chr1:186346400-186361000	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr1:186346400-186361200	Weak transcription	Brain Angular Gyrus	brain
33	chr1:186346400-186376000	Weak transcription	Pancreatic Islets	Pancreatic Islet
34	chr1:186346400-186388000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr1:186346400-186390000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr1:186346600-186357400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr1:186346600-186357400	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr1:186346600-186359400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
39	chr1:186346800-186354000	Weak transcription	Fetal Heart	heart
40	chr1:186346800-186354600	Strong transcription	K562	blood
41	chr1:186346800-186357400	Weak transcription	Stomach Mucosa	stomach
42	chr1:186347000-186357200	Weak transcription	Primary hematopoietic stem cells	blood
43	chr1:186347200-186370800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr1:186347400-186368000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
45	chr1:186347400-186370400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
46	chr1:186347400-186370400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr1:186347600-186357800	Weak transcription	NHEK	skin
48	chr1:186347600-186358000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
49	chr1:186347600-186370800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr1:186348000-186359400	Weak transcription	Primary T killer memory cells from peripheral blood	blood

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