Variant report

Variant	rs2052428
Chromosome Location	chr12:106207266-106207267
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:106205255..106208191-chr12:106215389..106217640,2	MCF-7	breast:
2	chr12:106199776..106202110-chr12:106205911..106208055,2	MCF-7	breast:

Extended variants
information (count: 101 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs10507199	0.88[ASN][1000 genomes]
rs10732669	1.00[CHB][hapmap];0.96[JPT][hapmap];0.90[ASN][1000 genomes]
rs10732670	0.90[ASN][1000 genomes]
rs10735409	0.90[ASN][1000 genomes]
rs10735410	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10735411	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10735412	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10735413	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10746050	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10778440	0.88[ASN][1000 genomes]
rs10778441	0.90[ASN][1000 genomes]
rs10778442	0.90[ASN][1000 genomes]
rs10778446	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10778447	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10778448	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10861505	0.88[ASN][1000 genomes]
rs10861511	0.82[ASN][1000 genomes]
rs10861512	0.88[ASN][1000 genomes]
rs10861513	0.86[ASN][1000 genomes]
rs10861514	0.95[ASN][1000 genomes]
rs10861515	0.95[ASN][1000 genomes]
rs10861517	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11112724	0.88[ASN][1000 genomes]
rs11112729	0.90[ASN][1000 genomes]
rs11112730	0.89[ASN][1000 genomes]
rs11112731	0.88[ASN][1000 genomes]
rs11112733	0.90[ASN][1000 genomes]
rs11112736	0.88[ASN][1000 genomes]
rs11112737	0.90[ASN][1000 genomes]
rs11112739	0.95[ASN][1000 genomes]
rs11112747	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11833529	0.88[ASN][1000 genomes]
rs12305658	0.88[ASN][1000 genomes]
rs12314159	0.94[ASN][1000 genomes]
rs12370329	0.89[ASN][1000 genomes]
rs1421445	0.95[ASN][1000 genomes]
rs1421446	0.95[ASN][1000 genomes]
rs1421447	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1477238	0.95[ASN][1000 genomes]
rs1477239	0.95[ASN][1000 genomes]
rs1477240	0.95[ASN][1000 genomes]
rs1477242	0.95[ASN][1000 genomes]
rs1549103	0.86[ASN][1000 genomes]
rs2111975	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2111976	0.92[ASN][1000 genomes]
rs2374538	0.95[ASN][1000 genomes]
rs2888869	0.88[ASN][1000 genomes]
rs4270016	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4337138	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4430602	0.95[ASN][1000 genomes]
rs4438139	0.90[ASN][1000 genomes]
rs4499093	0.88[ASN][1000 genomes]
rs4509865	0.90[ASN][1000 genomes]
rs4509866	1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs4516058	0.94[ASN][1000 genomes]
rs4600310	0.88[ASN][1000 genomes]
rs4609683	0.84[ASN][1000 genomes]
rs4609684	0.88[ASN][1000 genomes]
rs4964160	0.94[ASN][1000 genomes]
rs4964161	0.94[ASN][1000 genomes]
rs4964409	0.88[ASN][1000 genomes]
rs4964410	0.90[ASN][1000 genomes]
rs4964411	1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs4964413	0.89[ASN][1000 genomes]
rs4964414	0.86[ASN][1000 genomes]
rs4964415	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4964416	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6539230	0.80[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6539231	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7302776	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7303862	0.85[ASN][1000 genomes]
rs7307825	0.94[ASN][1000 genomes]
rs7307959	0.92[ASN][1000 genomes]
rs7309925	0.94[ASN][1000 genomes]
rs7311274	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7313258	0.88[ASN][1000 genomes]
rs7313292	0.88[ASN][1000 genomes]
rs750207	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs750208	0.91[ASN][1000 genomes]
rs7954139	0.94[ASN][1000 genomes]
rs7954308	0.94[ASN][1000 genomes]
rs7954604	1.00[CHB][hapmap];0.96[JPT][hapmap];0.90[ASN][1000 genomes]
rs7956555	0.88[ASN][1000 genomes]
rs7964548	0.86[ASN][1000 genomes]
rs7968050	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7968132	1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs7970318	0.80[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7979193	0.95[ASN][1000 genomes]
rs7979632	0.94[ASN][1000 genomes]
rs878612	0.80[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs9634186	0.90[ASN][1000 genomes]
rs9634187	0.89[ASN][1000 genomes]
rs9634188	0.89[ASN][1000 genomes]
rs9634189	0.90[ASN][1000 genomes]
rs9634227	1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs9634228	1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs9634229	0.90[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	nsv1039068	chr12:105935786-106211250	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1047810	chr12:106067049-106246582	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1040261	chr12:106068992-106246582	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv832508	chr12:106198797-106409112	Weak transcription Enhancers Active TSS Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:106192800-106208000	Weak transcription	HSMMtube	muscle
2	chr12:106200200-106212400	Weak transcription	Left Ventricle	heart
3	chr12:106205800-106207400	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr12:106205800-106207400	Enhancers	Aorta	Aorta
5	chr12:106205800-106207600	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr12:106206000-106207800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr12:106206200-106207600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr12:106206200-106208800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr12:106206200-106209000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr12:106206400-106208200	Weak transcription	Right Ventricle	heart
11	chr12:106206600-106207400	Enhancers	Brain Anterior Caudate	brain
12	chr12:106206600-106209000	Enhancers	Fetal Muscle Leg	muscle
13	chr12:106207000-106207400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr12:106207000-106207400	Enhancers	Fetal Stomach	stomach
15	chr12:106207000-106208000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr12:106207000-106214000	Weak transcription	Right Atrium	heart
17	chr12:106207000-106214400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr12:106207200-106207400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr12:106207200-106207600	Enhancers	Fetal Muscle Trunk	muscle
20	chr12:106207200-106208000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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