Variant report

Variant	rs12526405
Chromosome Location	chr6:163684882-163684883
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:163619302..163621852-chr6:163683443..163685486,2	MCF-7	breast:
2	chr6:163619784..163621705-chr6:163683976..163685917,2	MCF-7	breast:
3	chr6:163684336..163687105-chr6:163835790..163838272,2	MCF-7	breast:
4	chr6:163682473..163685111-chr6:163834229..163835795,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000270419	Chromatin interaction
ENSG00000112531	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs13190700	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13192267	0.83[AFR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13194634	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13194912	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13198111	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13202006	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13202129	0.96[AFR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13205335	0.82[AFR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13209061	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13214395	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13216996	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13217534	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13219871	0.96[AFR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13219986	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13220110	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13220802	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6913469	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];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	nsv932127	chr6:163000261-163950870	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1026490	chr6:163133433-163705708	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv869286	chr6:163146342-163697445	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1022610	chr6:163591786-163814041	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:163680000-163686600	Enhancers	Fetal Heart	heart
2	chr6:163681200-163685400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr6:163681400-163685200	Weak transcription	Pancreas	Pancrea
4	chr6:163681800-163685000	Weak transcription	Liver	Liver
5	chr6:163682000-163685400	Weak transcription	Esophagus	oesophagus
6	chr6:163682000-163686200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
7	chr6:163682000-163686400	Enhancers	Brain Cingulate Gyrus	brain
8	chr6:163682000-163686400	Enhancers	Brain Substantia Nigra	brain
9	chr6:163682000-163701600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr6:163682200-163685400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr6:163682200-163685400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr6:163682200-163685600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr6:163682200-163685800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr6:163682200-163686600	Enhancers	Brain Hippocampus Middle	brain
15	chr6:163682600-163688000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr6:163682800-163686400	Enhancers	H1 Cell Line	embryonic stem cell
17	chr6:163683200-163686400	Enhancers	Cortex derived primary cultured neurospheres	brain
18	chr6:163683400-163685800	Enhancers	Brain Germinal Matrix	brain
19	chr6:163683600-163685200	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr6:163683600-163685600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr6:163683600-163686400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr6:163683800-163685200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr6:163683800-163685400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr6:163683800-163686400	Enhancers	Left Ventricle	heart
25	chr6:163684000-163685800	Enhancers	Adipose Nuclei	Adipose
26	chr6:163684000-163686000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr6:163684000-163686000	Enhancers	Brain Angular Gyrus	brain
28	chr6:163684200-163685200	Enhancers	Brain Inferior Temporal Lobe	brain
29	chr6:163684200-163685600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:163684200-163685800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr6:163684200-163685800	Enhancers	Skeletal Muscle Male	skeletal muscle
32	chr6:163684200-163686000	Enhancers	iPS-18 Cell Line	embryonic stem cell
33	chr6:163684400-163685000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr6:163684400-163685200	Weak transcription	HUES6 Cell Line	embryonic stem cell
35	chr6:163684400-163685400	Weak transcription	Gastric	stomach
36	chr6:163684600-163685400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr6:163684600-163686000	Enhancers	Brain Anterior Caudate	brain
38	chr6:163684600-163686000	Enhancers	Skeletal Muscle Female	skeletal muscle
39	chr6:163684800-163685200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr6:163684800-163686400	Enhancers	Right Ventricle	heart

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