Variant report

Variant	rs6441109
Chromosome Location	chr3:156782536-156782537
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	chr3:156778985..156781470-chr3:156781540..156783699,2	K562	blood:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1032042	1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10936057	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10936060	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1384542	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1482856	0.84[CEU][hapmap];0.88[EUR][1000 genomes]
rs1482859	0.88[EUR][1000 genomes]
rs1482860	1.00[CHB][hapmap];0.82[JPT][hapmap];0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1482863	1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1552194	1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1600976	1.00[CHB][hapmap];0.82[JPT][hapmap];0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1905208	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2128536	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2321459	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4266145	1.00[ASN][1000 genomes]
rs4574238	1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4680326	1.00[CHB][hapmap];0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4680328	0.82[JPT][hapmap];0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4680333	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4680334	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6441106	0.82[JPT][hapmap]
rs6441107	1.00[CHB][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs6765256	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6769719	1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6774012	1.00[CHB][hapmap];0.82[JPT][hapmap];0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6779199	0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6797982	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6802521	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7616559	1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7621842	0.81[ASN][1000 genomes]
rs922865	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9818427	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9818500	0.88[EUR][1000 genomes]
rs9829700	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9838466	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9839037	1.00[CHB][hapmap];0.82[JPT][hapmap];0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9840284	1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9842862	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs9852415	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9875244	1.00[CHB][hapmap];0.82[JPT][hapmap];0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9880927	1.00[CHB][hapmap];0.80[AMR][1000 genomes];0.87[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	esv3349885	chr3:156685409-156878910	Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	141 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156780800-156782800	Enhancers	Brain Inferior Temporal Lobe	brain
2	chr3:156780800-156784200	Enhancers	Brain Substantia Nigra	brain
3	chr3:156780800-156785200	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr3:156781000-156782600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr3:156781000-156784200	Enhancers	Brain Anterior Caudate	brain
6	chr3:156781200-156782600	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
7	chr3:156781200-156782800	Enhancers	Brain Germinal Matrix	brain
8	chr3:156781200-156783200	Enhancers	Brain Hippocampus Middle	brain
9	chr3:156781200-156784200	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
10	chr3:156781200-156785400	Enhancers	Brain Cingulate Gyrus	brain
11	chr3:156781400-156782600	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
12	chr3:156781400-156783200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr3:156781400-156783400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr3:156781400-156784600	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
15	chr3:156781400-156785200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
16	chr3:156781600-156782600	Flanking Active TSS	GM12878-XiMat	blood
17	chr3:156781600-156784000	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
18	chr3:156781600-156785400	Enhancers	Brain Angular Gyrus	brain
19	chr3:156781600-156785800	Enhancers	Primary B cells from peripheral blood	blood
20	chr3:156781800-156782600	Enhancers	Fetal Brain Female	brain
21	chr3:156781800-156782800	Enhancers	Primary monocytes fromperipheralblood	blood
22	chr3:156781800-156782800	Enhancers	Primary B cells from cord blood	blood
23	chr3:156781800-156784000	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr3:156782000-156782600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr3:156782000-156782600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr3:156782000-156782600	Enhancers	Fetal Heart	heart
27	chr3:156782000-156782600	Enhancers	Monocytes-CD14+_RO01746	blood
28	chr3:156782000-156783400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr3:156782000-156783400	Enhancers	Fetal Muscle Trunk	muscle
30	chr3:156782000-156783600	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
31	chr3:156782000-156784000	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
32	chr3:156782000-156787200	Enhancers	Fetal Thymus	thymus
33	chr3:156782200-156782600	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr3:156782200-156782600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr3:156782200-156782800	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
36	chr3:156782200-156782800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
37	chr3:156782200-156782800	Enhancers	Adipose Nuclei	Adipose
38	chr3:156782200-156782800	Enhancers	Fetal Intestine Large	intestine
39	chr3:156782200-156782800	Enhancers	Spleen	Spleen
40	chr3:156782200-156783000	Weak transcription	Fetal Muscle Leg	muscle
41	chr3:156782200-156783600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr3:156782200-156783800	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr3:156782200-156784200	Weak transcription	NH-A	brain
44	chr3:156782200-156784600	Weak transcription	Rectal Smooth Muscle	rectum
45	chr3:156782400-156782600	Enhancers	Primary T helper cells PMA-I stimulated	--
46	chr3:156782400-156782600	Enhancers	K562	blood
47	chr3:156782400-156783000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr3:156782400-156783400	Bivalent Enhancer	ES-WA7 Cell Line	embryonic stem cell
49	chr3:156782400-156783600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
50	chr3:156782400-156783800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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