Variant report

Variant	rs11832789
Chromosome Location	chr12:83438293-83438294
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	chr12:83436175..83438871-chr14:91881648..91884275,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000015133	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10506888	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11115559	0.86[CEU][hapmap];0.84[EUR][1000 genomes]
rs11829960	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11832231	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11834840	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12315590	0.82[EUR][1000 genomes]
rs17010538	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17010563	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17010565	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17010567	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17010576	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17010577	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17010578	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17010580	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17010586	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2033576	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7304787	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv521849	chr12:83013783-83991479	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv469490	chr12:83089431-83507269	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
3	nsv559542	chr12:83089431-83507269	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
4	nsv559557	chr12:83334204-83453620	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	n/a
5	nsv1047239	chr12:83362299-83444855	Enhancers ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:83419000-83468000	Weak transcription	Fetal Stomach	stomach
2	chr12:83423600-83446200	Weak transcription	Brain Cingulate Gyrus	brain
3	chr12:83423600-83448800	Weak transcription	Brain Substantia Nigra	brain
4	chr12:83425400-83440600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr12:83428400-83439800	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr12:83428600-83443000	Weak transcription	Fetal Lung	lung
7	chr12:83434400-83440400	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr12:83434400-83452200	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr12:83436600-83439400	Weak transcription	Fetal Brain Male	brain
10	chr12:83436600-83452400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr12:83436800-83439600	Weak transcription	Fetal Muscle Leg	muscle
12	chr12:83436800-83467800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr12:83437000-83443000	Weak transcription	Brain Hippocampus Middle	brain
14	chr12:83437200-83439600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr12:83437200-83442800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr12:83437200-83444600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr12:83437200-83454400	Weak transcription	Colon Smooth Muscle	Colon
18	chr12:83437200-83467800	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr12:83437400-83438600	Weak transcription	Rectal Smooth Muscle	rectum
20	chr12:83437800-83443000	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr12:83438200-83438400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell

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