Variant report

Variant	rs9399500
Chromosome Location	chr6:145104858-145104859
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	chr6:145101856..145103538-chr6:145103795..145105406,2	K562	blood:
2	chr6:145092621..145095309-chr6:145101462..145105366,3	K562	blood:

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs11155374	0.85[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12661505	0.85[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12663956	0.85[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs12665635	0.86[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs36094852	0.81[AFR][1000 genomes]
rs4143940	0.96[ASN][1000 genomes]
rs4143941	0.98[ASN][1000 genomes]
rs4352697	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4499950	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59006614	0.92[EUR][1000 genomes]
rs61394186	0.92[EUR][1000 genomes]
rs6904626	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs6913104	0.92[EUR][1000 genomes]
rs6920139	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs6925320	0.92[EUR][1000 genomes]
rs6932567	1.00[CEU][hapmap]
rs6939484	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs73779136	0.92[EUR][1000 genomes]
rs73779140	0.92[EUR][1000 genomes]
rs7751513	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs9321995	0.85[JPT][hapmap]
rs9373426	0.86[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs9376847	0.86[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs9376848	0.86[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs9376849	0.86[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs9376850	0.93[ASN][1000 genomes]
rs9376851	0.93[ASN][1000 genomes]
rs9376856	0.86[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs9376861	0.86[JPT][hapmap]
rs9386083	0.86[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs9390204	0.98[ASN][1000 genomes]
rs9390207	0.98[ASN][1000 genomes]
rs9390209	0.86[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9390210	0.98[ASN][1000 genomes]
rs9390213	0.93[ASN][1000 genomes]
rs9390214	0.86[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9390216	0.86[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9390225	0.86[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs9390227	0.86[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs9390237	0.86[JPT][hapmap]
rs9399496	0.86[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9399497	0.85[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9399498	0.86[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9399499	0.98[ASN][1000 genomes]
rs9403597	0.86[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9403598	0.86[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9403599	0.86[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9403600	0.86[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9403601	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs9403607	0.85[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9403612	0.89[JPT][hapmap]
rs9403613	0.96[ASN][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	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1032838	chr6:144978504-145110121	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv830833	chr6:145001310-145201143	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv1021098	chr6:145017386-145106441	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145040000-145114600	Weak transcription	NHLF	lung
2	chr6:145046000-145122200	Weak transcription	Colonic Mucosa	Colon
3	chr6:145047600-145115000	Weak transcription	Esophagus	oesophagus
4	chr6:145047600-145115000	Weak transcription	Rectal Smooth Muscle	rectum
5	chr6:145066200-145126200	Weak transcription	Stomach Mucosa	stomach
6	chr6:145067800-145115800	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr6:145068800-145115000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr6:145073200-145105400	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr6:145075000-145108800	Strong transcription	Primary B cells from cord blood	blood
10	chr6:145080000-145115000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr6:145084000-145155800	Weak transcription	Right Ventricle	heart
12	chr6:145085400-145119000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr6:145085800-145134800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr6:145086800-145115000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr6:145087400-145115000	Weak transcription	Gastric	stomach
16	chr6:145089600-145138400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr6:145090000-145136800	Weak transcription	Fetal Heart	heart
18	chr6:145090400-145115000	Weak transcription	Brain Anterior Caudate	brain
19	chr6:145090800-145115400	Weak transcription	Fetal Brain Male	brain
20	chr6:145091000-145105200	Weak transcription	HSMM	muscle
21	chr6:145091000-145107800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr6:145091000-145107800	Weak transcription	Ovary	ovary
23	chr6:145091000-145114400	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr6:145091000-145114400	Weak transcription	NHDF-Ad	bronchial
25	chr6:145091000-145115000	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr6:145091000-145115000	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr6:145091000-145145000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr6:145091200-145117200	Weak transcription	Psoas Muscle	Psoas
29	chr6:145093400-145119800	Weak transcription	Fetal Intestine Small	intestine
30	chr6:145093800-145114800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr6:145094400-145136800	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr6:145095000-145114800	Weak transcription	Placenta	Placenta
33	chr6:145095000-145119000	Weak transcription	NH-A	brain
34	chr6:145095200-145115400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr6:145095200-145118800	Weak transcription	GM12878-XiMat	blood
36	chr6:145096000-145118600	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr6:145096600-145105400	Weak transcription	Fetal Lung	lung
38	chr6:145096800-145114600	Weak transcription	Stomach Smooth Muscle	stomach
39	chr6:145096800-145114800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
40	chr6:145096800-145118600	Weak transcription	HUVEC	blood vessel
41	chr6:145097000-145105000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
42	chr6:145097200-145114600	Weak transcription	Duodenum Mucosa	Duodenum
43	chr6:145097400-145115000	Weak transcription	Skeletal Muscle Female	skeletal muscle
44	chr6:145097600-145108000	Weak transcription	Fetal Kidney	kidney
45	chr6:145097600-145114800	Weak transcription	HUES64 Cell Line	embryonic stem cell
46	chr6:145097800-145107600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr6:145097800-145114400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
48	chr6:145097800-145114400	Weak transcription	Fetal Muscle Trunk	muscle
49	chr6:145097800-145114600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr6:145097800-145114800	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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