Variant report

Variant	rs9868643
Chromosome Location	chr3:150950288-150950289
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10513387	0.82[CEU][hapmap]
rs10513393	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs13321176	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs13322120	0.82[CEU][hapmap]
rs13327359	0.80[CEU][hapmap]
rs1388625	0.94[CEU][hapmap];0.90[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs1549829	0.87[CEU][hapmap]
rs1554120	0.82[CEU][hapmap]
rs17204437	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs17204459	0.81[CEU][hapmap]
rs17282940	0.94[CEU][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs17282947	1.00[CEU][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs17290219	0.82[CEU][hapmap]
rs17304673	0.86[CEU][hapmap];0.90[AFR][1000 genomes];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1920393	0.85[EUR][1000 genomes]
rs28386791	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs28734805	0.81[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs28810515	0.89[EUR][1000 genomes]
rs28831788	0.89[EUR][1000 genomes]
rs55751359	0.90[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs6780660	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6792089	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73157938	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73157954	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73157974	0.87[EUR][1000 genomes]
rs73157991	0.90[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7633788	0.82[CEU][hapmap]
rs7633828	0.81[CEU][hapmap]
rs7634096	0.82[CEU][hapmap]
rs7637803	0.81[CEU][hapmap]
rs9289837	0.81[CEU][hapmap]
rs9812617	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs9814936	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9817216	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs9819885	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9821749	0.92[EUR][1000 genomes]
rs9821937	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs9831242	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs9834154	0.89[EUR][1000 genomes]
rs9836053	0.87[CEU][hapmap]
rs9838990	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9840232	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9841430	0.81[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs9844557	0.87[CEU][hapmap]
rs9848789	1.00[CEU][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9853676	0.90[EUR][1000 genomes]
rs9854017	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9855202	0.81[CEU][hapmap]
rs9856118	0.94[CEU][hapmap];1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs9859552	0.82[CEU][hapmap]
rs9859854	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9867524	0.89[EUR][1000 genomes]
rs9871229	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9871624	0.88[CEU][hapmap];0.80[EUR][1000 genomes]
rs9872645	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9875587	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9876268	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs9876933	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs9880395	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9881116	0.94[CEU][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2757897	chr3:150791625-150957485	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv2759188	chr3:150791625-150957485	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150928800-150952800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:150928800-150953000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:150946200-150979400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:150946600-150950800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr3:150946600-150957800	Weak transcription	Gastric	stomach
6	chr3:150946800-150951800	Weak transcription	Rectal Smooth Muscle	rectum
7	chr3:150946800-150956600	Weak transcription	Fetal Lung	lung
8	chr3:150946800-150969200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr3:150946800-150983600	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr3:150948800-150952600	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr3:150949000-150950800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr3:150949000-150952600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr3:150949000-150953200	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr3:150949000-150958400	Weak transcription	Primary hematopoietic stem cells	blood
15	chr3:150949200-150951000	Weak transcription	Colon Smooth Muscle	Colon
16	chr3:150949200-150951400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr3:150949200-150951600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr3:150949200-150952400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr3:150949200-150952400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr3:150949200-150952600	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr3:150949200-150952600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr3:150949200-150952800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr3:150949200-150959200	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr3:150949400-150952800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr3:150949600-150951400	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr3:150949800-150951200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr3:150950000-150952200	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr3:150950000-150966400	Weak transcription	Primary B cells from cord blood	blood

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