Variant report

Variant	rs9390178
Chromosome Location	chr6:144936943-144936944
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	chr6:144934417..144936972-chr6:144942028..144944059,3	MCF-7	breast:
2	chr6:144924091..144927030-chr6:144935405..144937904,2	K562	blood:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10499232	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs12661566	0.91[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12662483	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs12662875	0.86[EUR][1000 genomes]
rs12663647	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12664494	0.91[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12664819	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1534442	0.86[JPT][hapmap]
rs1534443	0.86[JPT][hapmap]
rs1534444	0.87[JPT][hapmap]
rs17073972	1.00[CEU][hapmap];0.92[CHB][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17073995	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs1918751	0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1918752	0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1997252	0.92[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2056744	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs2091486	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2293536	0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs3811100	0.92[CHB][hapmap];0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs4076068	0.84[ASN][1000 genomes]
rs4896728	1.00[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6906465	0.86[JPT][hapmap]
rs9321980	0.88[ASN][1000 genomes]
rs9373415	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs9373419	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs9376823	0.92[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs9376824	0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs9376826	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9376828	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9376835	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs9386070	0.84[ASN][1000 genomes]
rs9386071	0.88[ASN][1000 genomes]
rs9386072	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9386073	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9386075	0.82[EUR][1000 genomes]
rs9390170	0.91[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs9390172	0.96[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs9390174	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9390175	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9390176	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9390184	0.82[JPT][hapmap]
rs9399480	0.92[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9399481	0.96[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9399485	0.82[EUR][1000 genomes]
rs9403563	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs9403564	0.91[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9403567	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403572	1.00[CEU][hapmap];0.83[JPT][hapmap];0.86[EUR][1000 genomes]
rs9497009	0.92[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.84[AMR][1000 genomes];0.96[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	nsv1015228	chr6:144780458-144989321	Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv538462	chr6:144780458-144989321	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	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

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144881800-144937800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:144885800-144943400	Weak transcription	Ovary	ovary
3	chr6:144904600-144939800	Weak transcription	HSMMtube	muscle
4	chr6:144908800-144947400	Weak transcription	HUVEC	blood vessel
5	chr6:144914800-144937800	Weak transcription	HSMM	muscle
6	chr6:144914800-144960000	Weak transcription	Lung	lung
7	chr6:144922200-144938400	Weak transcription	Liver	Liver
8	chr6:144922600-144938600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr6:144922800-144939000	Weak transcription	Fetal Muscle Leg	muscle
10	chr6:144923000-144938000	Weak transcription	NHDF-Ad	bronchial
11	chr6:144929600-144955200	Weak transcription	HepG2	liver
12	chr6:144929800-144938400	Weak transcription	Adipose Nuclei	Adipose
13	chr6:144929800-144945600	Weak transcription	Left Ventricle	heart
14	chr6:144930000-144943800	Weak transcription	Primary monocytes fromperipheralblood	blood
15	chr6:144930000-144945600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr6:144930000-144950200	Weak transcription	Primary T cells from cord blood	blood
17	chr6:144930200-144938000	Weak transcription	Fetal Heart	heart
18	chr6:144930200-144940800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr6:144930400-144957600	Weak transcription	Primary hematopoietic stem cells	blood
20	chr6:144930600-144973000	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr6:144930800-144951800	Weak transcription	Primary B cells from peripheral blood	blood
22	chr6:144930800-144957800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr6:144931000-144958800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr6:144932200-144937200	Enhancers	HUES64 Cell Line	embryonic stem cell
25	chr6:144932600-144937400	Enhancers	iPS-15b Cell Line	embryonic stem cell
26	chr6:144932600-144938000	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr6:144934000-144938200	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr6:144934200-144937000	Strong transcription	Primary B cells from cord blood	blood
29	chr6:144934200-144938200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr6:144934400-144941800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr6:144936000-144938200	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr6:144936000-144941000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
33	chr6:144936200-144938000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr6:144936200-144938000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
35	chr6:144936800-144938000	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr6:144936800-144938000	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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