Variant report

Variant	rs34789424
Chromosome Location	chr15:72471755-72471756
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:72469515..72473441-chr15:72475665..72477509,3	K562	blood:
2	chr15:72466804..72468796-chr15:72469087..72471853,2	MCF-7	breast:
3	chr15:72471247..72473901-chr15:72474760..72477219,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000175318	Chromatin interaction

Extended variants
information (count: 110 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:104)

rs_ID	r²[population]
rs10518987	0.94[ASN][1000 genomes]
rs11632505	0.88[ASN][1000 genomes]
rs12324744	0.94[ASN][1000 genomes]
rs12899442	0.89[ASN][1000 genomes]
rs12906356	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12906612	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12907087	0.94[ASN][1000 genomes]
rs12907377	0.94[ASN][1000 genomes]
rs12907707	0.88[ASN][1000 genomes]
rs12908241	0.88[ASN][1000 genomes]
rs12908863	0.88[ASN][1000 genomes]
rs12909590	0.94[ASN][1000 genomes]
rs12910475	0.88[ASN][1000 genomes]
rs12911285	0.94[ASN][1000 genomes]
rs12914269	0.94[ASN][1000 genomes]
rs12914312	0.88[ASN][1000 genomes]
rs12916039	0.88[ASN][1000 genomes]
rs12916226	0.94[ASN][1000 genomes]
rs12916298	0.88[ASN][1000 genomes]
rs12917402	0.89[ASN][1000 genomes]
rs1426169	0.94[ASN][1000 genomes]
rs2288257	0.94[ASN][1000 genomes]
rs2912203	0.88[ASN][1000 genomes]
rs2912204	0.88[ASN][1000 genomes]
rs2912215	0.88[ASN][1000 genomes]
rs2912222	0.88[ASN][1000 genomes]
rs2912224	0.88[ASN][1000 genomes]
rs2912225	0.88[ASN][1000 genomes]
rs2957751	0.82[ASN][1000 genomes]
rs2957752	0.88[ASN][1000 genomes]
rs2959916	0.88[ASN][1000 genomes]
rs2959917	0.88[ASN][1000 genomes]
rs2959918	0.88[ASN][1000 genomes]
rs2959919	0.88[ASN][1000 genomes]
rs2959923	0.88[ASN][1000 genomes]
rs2959924	0.88[ASN][1000 genomes]
rs2959927	0.88[ASN][1000 genomes]
rs2959929	0.88[ASN][1000 genomes]
rs2959931	0.88[ASN][1000 genomes]
rs2959933	0.88[ASN][1000 genomes]
rs2959935	0.88[ASN][1000 genomes]
rs2959940	0.89[ASN][1000 genomes]
rs34023258	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34115124	0.88[ASN][1000 genomes]
rs34211376	0.88[ASN][1000 genomes]
rs34294127	0.88[ASN][1000 genomes]
rs34346715	0.94[ASN][1000 genomes]
rs34362323	0.88[ASN][1000 genomes]
rs34382909	0.94[ASN][1000 genomes]
rs34481625	0.88[ASN][1000 genomes]
rs34505994	0.88[ASN][1000 genomes]
rs34511502	0.88[ASN][1000 genomes]
rs34538801	0.88[ASN][1000 genomes]
rs34658339	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34677662	0.88[ASN][1000 genomes]
rs34694253	0.88[ASN][1000 genomes]
rs34705283	0.88[ASN][1000 genomes]
rs34815962	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35071085	0.88[ASN][1000 genomes]
rs35104697	0.94[ASN][1000 genomes]
rs35144689	0.88[ASN][1000 genomes]
rs35202897	0.88[ASN][1000 genomes]
rs35259670	0.88[ASN][1000 genomes]
rs35285520	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35362359	0.88[ASN][1000 genomes]
rs35378070	0.94[ASN][1000 genomes]
rs35457238	0.88[ASN][1000 genomes]
rs35554838	0.88[ASN][1000 genomes]
rs35694406	0.94[ASN][1000 genomes]
rs36110969	0.94[ASN][1000 genomes]
rs3743227	0.94[ASN][1000 genomes]
rs3743228	0.94[ASN][1000 genomes]
rs3743229	0.94[ASN][1000 genomes]
rs3759901	0.94[ASN][1000 genomes]
rs3825949	0.83[ASN][1000 genomes]
rs4776592	0.89[ASN][1000 genomes]
rs4776593	0.89[ASN][1000 genomes]
rs4777501	0.89[ASN][1000 genomes]
rs57420281	0.94[ASN][1000 genomes]
rs57692836	0.94[ASN][1000 genomes]
rs58352854	0.94[ASN][1000 genomes]
rs66608810	0.94[ASN][1000 genomes]
rs67195650	0.94[ASN][1000 genomes]
rs71395056	0.88[ASN][1000 genomes]
rs71395057	0.88[ASN][1000 genomes]
rs71395058	0.88[ASN][1000 genomes]
rs71395061	0.88[ASN][1000 genomes]
rs71395066	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs71395068	0.94[ASN][1000 genomes]
rs71395070	0.94[ASN][1000 genomes]
rs71395074	0.88[ASN][1000 genomes]
rs71397231	0.88[ASN][1000 genomes]
rs71397232	0.88[ASN][1000 genomes]
rs71397233	0.88[ASN][1000 genomes]
rs71411063	0.88[ASN][1000 genomes]
rs7169150	0.94[ASN][1000 genomes]
rs7174264	0.83[ASN][1000 genomes]
rs73438446	0.94[ASN][1000 genomes]
rs8192359	0.94[ASN][1000 genomes]
rs8192387	0.94[ASN][1000 genomes]
rs8192397	0.94[ASN][1000 genomes]
rs8192400	0.95[AMR][1000 genomes]
rs9806184	0.94[ASN][1000 genomes]
rs9806204	0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042740	chr15:72128799-72482239	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv542426	chr15:72128799-72482239	Flanking Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	nsv431395	chr15:72266174-72701777	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
4	nsv833051	chr15:72315471-72508429	Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	nsv530817	chr15:72350885-72773374	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	173 gene(s)	inside rSNPs	diseases
6	esv3430860	chr15:72373723-72849907	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	172 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72463600-72472200	Weak transcription	Fetal Intestine Small	intestine
2	chr15:72465000-72476200	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr15:72466600-72472400	Enhancers	HMEC	breast
4	chr15:72466800-72476200	Weak transcription	Esophagus	oesophagus
5	chr15:72468000-72476000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr15:72468400-72473200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr15:72468400-72476000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr15:72469000-72472000	Weak transcription	Right Atrium	heart
9	chr15:72469000-72475000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr15:72470000-72472200	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr15:72470200-72473600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr15:72471000-72472000	Weak transcription	Pancreas	Pancrea
13	chr15:72471200-72472200	Flanking Active TSS	Placenta	Placenta
14	chr15:72471200-72473400	Enhancers	Brain Inferior Temporal Lobe	brain
15	chr15:72471200-72473800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr15:72471200-72474200	Enhancers	Cortex derived primary cultured neurospheres	brain
17	chr15:72471200-72474400	Enhancers	Brain Anterior Caudate	brain
18	chr15:72471400-72472000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
19	chr15:72471400-72472000	Enhancers	Brain Hippocampus Middle	brain
20	chr15:72471400-72472000	Enhancers	Brain Substantia Nigra	brain
21	chr15:72471400-72473000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr15:72471400-72473200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
23	chr15:72471400-72473200	Enhancers	Skeletal Muscle Female	skeletal muscle
24	chr15:72471400-72473400	Enhancers	Brain Angular Gyrus	brain
25	chr15:72471400-72473600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr15:72471400-72473800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr15:72471600-72471800	Enhancers	A549	lung
28	chr15:72471600-72471800	Enhancers	HepG2	liver
29	chr15:72471600-72472000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr15:72471600-72472000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr15:72471600-72472200	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr15:72471600-72472400	Enhancers	Lung	lung
33	chr15:72471600-72473000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr15:72471600-72473200	Enhancers	Fetal Muscle Leg	muscle
35	chr15:72471600-72473400	Enhancers	Brain Cingulate Gyrus	brain
36	chr15:72471600-72473600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain

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