Variant report

Variant	rs4894840
Chromosome Location	chr3:105600399-105600400
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:105594821..105597024-chr3:105599746..105602672,2	K562	blood:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs1021858	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1021859	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1039544	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10511246	0.93[CEU][hapmap];0.82[CHB][hapmap];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11921710	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11924742	1.00[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12633854	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12636287	0.81[EUR][1000 genomes]
rs1503921	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1867192	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1867195	0.81[CEU][hapmap]
rs1910499	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2089091	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2197209	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3996189	0.88[CEU][hapmap]
rs4447799	0.86[CEU][hapmap]
rs4894957	0.88[CEU][hapmap]
rs4894960	0.80[EUR][1000 genomes]
rs4894962	0.81[EUR][1000 genomes]
rs57520912	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs58340800	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6437620	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6437621	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6437624	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs6437626	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6767627	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6788366	0.88[CEU][hapmap]
rs6804152	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6807382	0.88[CEU][hapmap]
rs7619449	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7629357	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7634844	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7637327	0.81[EUR][1000 genomes]
rs7641825	0.93[CEU][hapmap]
rs7648842	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7649466	0.93[CEU][hapmap];0.86[AMR][1000 genomes]
rs7651784	0.87[CEU][hapmap]
rs9631436	0.99[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9657904	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9826886	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9841500	0.87[CEU][hapmap]
rs9846534	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9869648	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9874600	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.90[EUR][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	nsv1008564	chr3:105554580-105643435	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1008876	chr3:105554580-105645373	Active TSS Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv877312	chr3:105560638-105916506	Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105589000-105601200	Weak transcription	Aorta	Aorta
2	chr3:105589000-105601200	Weak transcription	Thymus	Thymus
3	chr3:105589000-105601200	Weak transcription	NH-A	brain
4	chr3:105589200-105601200	Weak transcription	Colon Smooth Muscle	Colon
5	chr3:105596200-105601200	Weak transcription	Fetal Kidney	kidney
6	chr3:105596400-105601200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr3:105596600-105601200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr3:105596600-105601200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr3:105596600-105601200	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr3:105597000-105601200	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr3:105597200-105601200	Weak transcription	Primary T helper cells PMA-I stimulated	--
12	chr3:105597200-105601200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr3:105597200-105601200	Weak transcription	NHLF	lung
14	chr3:105597200-105601400	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr3:105597400-105601200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:105597400-105601200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
17	chr3:105597400-105601200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr3:105597400-105601200	Weak transcription	Osteobl	bone
19	chr3:105597600-105601200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr3:105597600-105601200	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr3:105597600-105601200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr3:105597600-105601200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr3:105597600-105601200	Weak transcription	Fetal Lung	lung
24	chr3:105597600-105601400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr3:105597600-105601400	Weak transcription	Primary T cells from cord blood	blood
26	chr3:105597600-105601400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr3:105599200-105601200	Enhancers	Pancreatic Islets	Pancreatic Islet
28	chr3:105599400-105600400	Enhancers	Stomach Mucosa	stomach
29	chr3:105600000-105601200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr3:105600200-105601400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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