Variant report

Variant	rs1525861
Chromosome Location	chr3:143271365-143271366
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:143257701..143259574-chr3:143270912..143274764,3	K562	blood:
2	chr3:143264506..143266656-chr3:143269713..143272462,2	K562	blood:

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10513210	0.92[ASW][hapmap];0.87[CEU][hapmap];0.84[LWK][hapmap];0.84[TSI][hapmap];0.85[YRI][hapmap]
rs11922063	0.93[CHB][hapmap];1.00[CHD][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs12633124	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.92[MEX][hapmap];0.90[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16853767	0.87[CEU][hapmap]
rs16853772	0.93[CHB][hapmap];1.00[CHD][hapmap];0.93[JPT][hapmap];0.94[ASN][1000 genomes]
rs4271909	0.92[CHB][hapmap];0.93[JPT][hapmap];0.94[ASN][1000 genomes]
rs57077045	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58563413	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72999736	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[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	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	esv2757894	chr3:142992697-143285979	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	esv2759184	chr3:142992697-143285979	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143248400-143276800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr3:143255600-143276800	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr3:143255800-143271800	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr3:143256000-143305600	Weak transcription	Brain Cingulate Gyrus	brain
5	chr3:143256600-143275000	Weak transcription	Fetal Muscle Trunk	muscle
6	chr3:143256800-143277000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:143257200-143277800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr3:143258400-143271400	Weak transcription	Fetal Stomach	stomach
9	chr3:143262000-143279200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr3:143263200-143277000	Weak transcription	Gastric	stomach
11	chr3:143263800-143272200	Strong transcription	Primary T cells from cord blood	blood
12	chr3:143264000-143272000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr3:143265000-143277600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr3:143265600-143272200	Strong transcription	Primary T cells fromperipheralblood	blood
15	chr3:143265800-143274200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr3:143267600-143277000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr3:143267800-143273000	Weak transcription	Primary B cells from peripheral blood	blood
18	chr3:143269200-143271800	Strong transcription	Primary T helper cells fromperipheralblood	blood
19	chr3:143269600-143271600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr3:143269800-143277000	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr3:143270400-143277000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr3:143270600-143271400	Active TSS	Fetal Brain Male	brain
23	chr3:143270600-143271800	Weak transcription	Primary B cells from cord blood	blood
24	chr3:143270600-143272200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr3:143270600-143276200	Weak transcription	Fetal Muscle Leg	muscle
26	chr3:143270600-143304800	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr3:143270800-143271600	Weak transcription	Primary monocytes fromperipheralblood	blood
28	chr3:143270800-143271800	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr3:143270800-143272200	Weak transcription	Brain Substantia Nigra	brain
30	chr3:143270800-143272600	Weak transcription	Spleen	Spleen
31	chr3:143270800-143272800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr3:143270800-143272800	Weak transcription	Stomach Smooth Muscle	stomach
33	chr3:143270800-143273000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr3:143270800-143273400	Enhancers	Fetal Lung	lung
35	chr3:143270800-143273600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr3:143270800-143276800	Weak transcription	Duodenum Mucosa	Duodenum
37	chr3:143270800-143276800	Weak transcription	Esophagus	oesophagus
38	chr3:143270800-143276800	Weak transcription	Ovary	ovary
39	chr3:143270800-143277000	Weak transcription	Brain Hippocampus Middle	brain
40	chr3:143271000-143271400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr3:143271000-143271800	Weak transcription	Brain Anterior Caudate	brain
42	chr3:143271000-143272000	Enhancers	Adipose Nuclei	Adipose
43	chr3:143271000-143273000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr3:143271000-143273200	Weak transcription	Liver	Liver
45	chr3:143271000-143274000	Weak transcription	Monocytes-CD14+_RO01746	blood
46	chr3:143271200-143276800	Weak transcription	Primary T helper cells PMA-I stimulated	--

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