Variant report

Variant	rs9389986
Chromosome Location	chr6:142661114-142661115
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:142659535..142661305-chr6:142666429..142668961,2	MCF-7	breast:
2	chr6:142659623..142661197-chr6:142681381..142684257,2	MCF-7	breast:
3	chr6:142649012..142650608-chr6:142659636..142662269,2	K562	blood:

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs1040525	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1040526	0.90[CEU][hapmap];0.91[CHB][hapmap];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10457739	1.00[YRI][hapmap]
rs11755163	1.00[YRI][hapmap]
rs1342060	0.89[CEU][hapmap];0.91[CHB][hapmap];0.94[EUR][1000 genomes]
rs1360194	0.89[CEU][hapmap];0.91[CHB][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1418201	0.90[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs155259	0.82[EUR][1000 genomes]
rs1891308	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2039986	0.90[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2039987	0.88[CEU][hapmap];0.91[CHB][hapmap];0.93[EUR][1000 genomes]
rs2050157	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs225625	1.00[YRI][hapmap]
rs225638	1.00[YRI][hapmap]
rs225647	1.00[YRI][hapmap]
rs225694	1.00[YRI][hapmap]
rs2294764	0.90[CEU][hapmap];0.86[CHB][hapmap];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2294771	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs262119	0.82[EUR][1000 genomes]
rs262121	0.82[EUR][1000 genomes]
rs262129	0.82[EUR][1000 genomes]
rs263178	0.81[EUR][1000 genomes]
rs263179	0.81[EUR][1000 genomes]
rs263180	0.82[EUR][1000 genomes]
rs263181	0.82[EUR][1000 genomes]
rs263182	0.82[EUR][1000 genomes]
rs263183	0.82[EUR][1000 genomes]
rs263184	0.82[EUR][1000 genomes]
rs263185	0.80[EUR][1000 genomes]
rs263186	0.82[EUR][1000 genomes]
rs263187	0.82[EUR][1000 genomes]
rs263188	0.82[EUR][1000 genomes]
rs263189	0.82[EUR][1000 genomes]
rs3748069	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3817929	0.81[CEU][hapmap];0.91[CHB][hapmap];0.82[JPT][hapmap];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4896582	0.89[CEU][hapmap];0.87[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs6570507	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6570508	1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs6570509	0.94[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6570510	1.00[CEU][hapmap];0.95[CHB][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6909857	0.89[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6929442	0.83[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6937121	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7741741	0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7753012	1.00[YRI][hapmap]
rs7754638	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7755109	0.84[CEU][hapmap];0.91[CHB][hapmap];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7756305	0.89[CEU][hapmap];0.91[CHB][hapmap];0.94[EUR][1000 genomes]
rs7763064	0.87[EUR][1000 genomes]
rs7770386	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7774095	0.94[CEU][hapmap];0.95[CHB][hapmap];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7776375	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9373346	1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9389984	0.92[EUR][1000 genomes]
rs9389985	0.81[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9389987	0.93[EUR][1000 genomes]
rs9399401	0.89[CEU][hapmap];0.91[CHB][hapmap];0.94[EUR][1000 genomes]
rs9403380	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9403381	1.00[CEU][hapmap];0.91[CHB][hapmap];0.94[EUR][1000 genomes]
rs9403382	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9403383	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9403387	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9496346	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9496369	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9496374	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9496392	0.88[EUR][1000 genomes]
rs962554	0.85[CEU][hapmap];0.91[CHB][hapmap];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs972982	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv830825	chr6:142585242-142752575	Enhancers Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142654200-142666400	Weak transcription	HMEC	breast
2	chr6:142654200-142668800	Weak transcription	Primary hematopoietic stem cells	blood
3	chr6:142654400-142666200	Weak transcription	NHEK	skin
4	chr6:142654800-142676600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr6:142657400-142678800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr6:142657600-142665800	Weak transcription	NHLF	lung
7	chr6:142659000-142666000	Weak transcription	Liver	Liver
8	chr6:142660000-142662200	Enhancers	A549	lung
9	chr6:142660400-142662200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:142660400-142662200	Enhancers	Fetal Lung	lung
11	chr6:142660600-142662000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr6:142660600-142662400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr6:142660800-142661200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr6:142660800-142661600	Strong transcription	HepG2	liver
15	chr6:142660800-142662200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr6:142660800-142662400	Enhancers	Placenta Amnion	Placenta Amnion
17	chr6:142661000-142662000	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr6:142661000-142662000	Enhancers	iPS-20b Cell Line	embryonic stem cell

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