Variant report

Variant	rs6900175
Chromosome Location	chr6:146115940-146115941
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	chr6:146053655..146057107-chr6:146112200..146116878,5	MCF-7	breast:
2	chr6:146115930..146118783-chr6:146133946..146136600,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112425	Chromatin interaction
ENSG00000118496	Chromatin interaction
ENSG00000270638	Chromatin interaction
ENSG00000235652	Chromatin interaction

Extended variants
information (count: 96 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs1011597	0.90[JPT][hapmap]
rs10223507	0.80[JPT][hapmap]
rs1062068	0.81[JPT][hapmap]
rs10872580	0.90[JPT][hapmap]
rs11155438	0.90[JPT][hapmap]
rs12199362	0.90[JPT][hapmap]
rs1292333	0.90[JPT][hapmap]
rs1292334	0.90[JPT][hapmap]
rs1337841	0.90[JPT][hapmap]
rs1415744	0.90[JPT][hapmap]
rs1415746	0.90[JPT][hapmap]
rs1415747	0.90[JPT][hapmap]
rs1890170	0.87[ASN][1000 genomes]
rs1890171	0.90[JPT][hapmap]
rs1970306	0.88[ASN][1000 genomes]
rs2050027	0.90[JPT][hapmap]
rs2064185	0.89[JPT][hapmap]
rs2142978	0.92[CHB][hapmap];0.95[JPT][hapmap]
rs2142980	0.92[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2223411	0.81[ASN][1000 genomes]
rs2235481	0.92[CHB][hapmap];0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs2246132	0.85[ASN][1000 genomes]
rs2247666	0.81[JPT][hapmap]
rs2249386	0.81[JPT][hapmap]
rs2253654	0.81[JPT][hapmap]
rs2253757	0.92[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs2265470	0.89[ASN][1000 genomes]
rs2265475	0.85[ASN][1000 genomes]
rs2485631	0.92[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs2814874	0.80[JPT][hapmap]
rs2814875	0.81[JPT][hapmap]
rs2814877	0.81[JPT][hapmap]
rs34541797	0.80[ASN][1000 genomes]
rs3811102	0.90[JPT][hapmap]
rs3924499	0.80[JPT][hapmap]
rs3924502	0.81[JPT][hapmap]
rs4075694	0.81[JPT][hapmap]
rs4280983	0.81[JPT][hapmap]
rs4895683	0.90[JPT][hapmap]
rs4896832	0.90[JPT][hapmap]
rs4896837	0.90[JPT][hapmap]
rs4896838	0.84[CHB][hapmap];0.95[JPT][hapmap]
rs62435775	0.89[ASN][1000 genomes]
rs6570701	0.90[JPT][hapmap]
rs6570708	0.90[JPT][hapmap]
rs6570732	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs6901888	0.90[JPT][hapmap]
rs6906258	0.90[JPT][hapmap]
rs6906402	0.90[JPT][hapmap]
rs6915718	0.90[JPT][hapmap]
rs6922507	0.81[JPT][hapmap]
rs6923545	0.81[JPT][hapmap]
rs6930154	0.90[JPT][hapmap]
rs6941429	0.90[JPT][hapmap]
rs697053	0.90[JPT][hapmap]
rs697054	0.90[JPT][hapmap]
rs697055	0.90[JPT][hapmap]
rs702304	0.90[JPT][hapmap]
rs702306	0.90[JPT][hapmap]
rs702307	0.90[JPT][hapmap]
rs702316	0.92[CHB][hapmap];0.95[JPT][hapmap]
rs702318	0.84[CHB][hapmap];0.95[JPT][hapmap]
rs702319	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs702322	0.92[CHB][hapmap];0.95[JPT][hapmap]
rs702324	0.84[CHB][hapmap];0.95[JPT][hapmap]
rs7752286	0.90[JPT][hapmap]
rs7753092	0.81[JPT][hapmap]
rs7753273	0.92[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs7753696	0.81[JPT][hapmap]
rs7753770	0.90[JPT][hapmap]
rs857875	0.90[JPT][hapmap]
rs857877	0.90[JPT][hapmap]
rs857880	0.90[JPT][hapmap]
rs857881	0.90[JPT][hapmap]
rs857882	0.90[JPT][hapmap]
rs857883	0.90[JPT][hapmap]
rs9285508	0.84[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap]
rs9373467	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs9373475	0.89[JPT][hapmap]
rs9376961	0.90[JPT][hapmap]
rs9376965	0.89[ASN][1000 genomes]
rs9376970	0.81[JPT][hapmap]
rs9386136	0.92[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs9390356	0.90[JPT][hapmap]
rs9390365	0.81[JPT][hapmap]
rs9399561	0.90[JPT][hapmap]
rs9403737	0.90[JPT][hapmap]
rs9403739	0.84[CHB][hapmap];0.95[JPT][hapmap]
rs9403742	0.81[JPT][hapmap]
rs9403749	0.81[JPT][hapmap]
rs9403756	0.81[JPT][hapmap]
rs9485017	0.92[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs9497403	0.92[CHB][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs9497426	0.95[CEU][hapmap];0.92[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.87[ASN][1000 genomes]
rs9497431	0.81[JPT][hapmap]

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	nsv1034226	chr6:146071068-146306942	Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:146100600-146123200	Weak transcription	HUVEC	blood vessel
2	chr6:146103000-146119400	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr6:146104600-146118800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr6:146104600-146127000	Weak transcription	Brain Hippocampus Middle	brain
5	chr6:146105000-146123200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr6:146105200-146134400	Weak transcription	Thymus	Thymus
7	chr6:146105400-146125800	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr6:146105600-146119000	Weak transcription	NH-A	brain
9	chr6:146105800-146125600	Weak transcription	Fetal Kidney	kidney
10	chr6:146106000-146133600	Weak transcription	Brain Cingulate Gyrus	brain
11	chr6:146106600-146118400	Weak transcription	Colon Smooth Muscle	Colon
12	chr6:146106600-146122200	Weak transcription	NHLF	lung
13	chr6:146106800-146121200	Weak transcription	Stomach Smooth Muscle	stomach
14	chr6:146106800-146122800	Weak transcription	HSMMtube	muscle
15	chr6:146107000-146122200	Weak transcription	Left Ventricle	heart
16	chr6:146107000-146125600	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr6:146109400-146120200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr6:146110200-146135000	Weak transcription	Pancreas	Pancrea
19	chr6:146111000-146117200	Weak transcription	Fetal Heart	heart
20	chr6:146111000-146120200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr6:146111600-146116800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr6:146112400-146118400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr6:146112400-146122200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr6:146112400-146122400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr6:146112400-146122400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr6:146112400-146122400	Weak transcription	Adipose Nuclei	Adipose
27	chr6:146112400-146123000	Weak transcription	Fetal Muscle Trunk	muscle
28	chr6:146112400-146125400	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr6:146112400-146125400	Weak transcription	Fetal Stomach	stomach
30	chr6:146112400-146125600	Weak transcription	Aorta	Aorta
31	chr6:146112400-146125600	Weak transcription	Brain Substantia Nigra	brain
32	chr6:146112400-146135000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr6:146112600-146118600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr6:146112600-146121200	Weak transcription	Osteobl	bone
35	chr6:146112600-146122200	Weak transcription	Primary B cells from cord blood	blood
36	chr6:146112600-146124600	Weak transcription	Liver	Liver
37	chr6:146112600-146125800	Weak transcription	Fetal Brain Female	brain
38	chr6:146112800-146122000	Weak transcription	NHEK	skin
39	chr6:146113000-146123200	Weak transcription	HMEC	breast
40	chr6:146113200-146122200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
41	chr6:146113200-146122800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr6:146113400-146118800	Weak transcription	Ovary	ovary
43	chr6:146113400-146122800	Weak transcription	Primary monocytes fromperipheralblood	blood
44	chr6:146113400-146133600	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr6:146113600-146122200	Weak transcription	Psoas Muscle	Psoas
46	chr6:146113600-146122800	Weak transcription	Primary B cells from peripheral blood	blood
47	chr6:146113800-146116800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr6:146113800-146118400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr6:146113800-146119800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr6:146113800-146124000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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