Variant report

Variant	rs12584646
Chromosome Location	chr13:30464007-30464008
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	chr13:30463587..30466025-chr13:30471083..30473651,3	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs12429538	0.82[ASN][1000 genomes]
rs17631379	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17631397	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17687828	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9314983	0.93[CHB][hapmap];0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9314984	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9314985	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9550501	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9550503	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9550504	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9550505	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9550506	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9551757	0.87[CHB][hapmap];0.83[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9551758	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9551759	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9551760	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9551761	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9551763	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9551764	0.86[CHB][hapmap];0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9551765	0.93[CHB][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9551766	0.80[CEU][hapmap];0.93[CHB][hapmap];0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][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	esv3520592	chr13:30243601-30648554	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	esv3520593	chr13:30243601-30648554	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:30452200-30468000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr13:30452200-30468200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr13:30452600-30472200	Weak transcription	Ovary	ovary
4	chr13:30461200-30466400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr13:30462000-30468200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr13:30462400-30466200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr13:30462400-30466200	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr13:30462400-30468200	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr13:30463000-30466200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr13:30463000-30466400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr13:30463000-30467600	Weak transcription	Fetal Lung	lung
12	chr13:30463000-30468000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr13:30463000-30476400	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr13:30463200-30466400	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr13:30463400-30465200	Weak transcription	Brain Substantia Nigra	brain
16	chr13:30463400-30465400	Weak transcription	Brain Hippocampus Middle	brain
17	chr13:30463400-30466000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr13:30463400-30466200	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr13:30463400-30466200	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr13:30463400-30466400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr13:30463400-30466400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr13:30463400-30468000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr13:30463600-30466000	Weak transcription	Brain Anterior Caudate	brain
24	chr13:30463600-30466200	Weak transcription	Brain Cingulate Gyrus	brain
25	chr13:30463600-30466400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr13:30463600-30466400	Weak transcription	Brain Angular Gyrus	brain
27	chr13:30463600-30468000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr13:30463800-30466200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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