Variant report

Variant	rs9972555
Chromosome Location	chr15:73373092-73373093
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:73304946..73307703-chr15:73371180..73373676,2	MCF-7	breast:
2	chr15:73074981..73077571-chr15:73371548..73374920,3	MCF-7	breast:
3	chr15:73339037..73341468-chr15:73372112..73374015,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000159322	Chromatin interaction
ENSG00000260898	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs12324461	0.87[AFR][1000 genomes]
rs13379876	0.87[AFR][1000 genomes]
rs13380051	0.87[AFR][1000 genomes]
rs13380184	0.87[AFR][1000 genomes]
rs13380398	0.87[AFR][1000 genomes]
rs16957727	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2127278	0.83[ASN][1000 genomes]
rs28623014	0.87[AFR][1000 genomes]
rs3784794	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3817374	0.86[AMR][1000 genomes]
rs4375637	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9972372	0.87[AFR][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	esv3352103	chr15:73191535-73454001	Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv482421	chr15:73279141-73426897	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
3	nsv904338	chr15:73313691-73483718	Enhancers Active TSS Strong transcription ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer 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
4	nsv517966	chr15:73349633-73488753	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv525462	chr15:73349633-73563495	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73365000-73374000	Enhancers	Brain Angular Gyrus	brain
2	chr15:73368200-73375600	Enhancers	Brain Substantia Nigra	brain
3	chr15:73368200-73381000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr15:73368400-73373200	Enhancers	Brain Anterior Caudate	brain
5	chr15:73368600-73375200	Weak transcription	Aorta	Aorta
6	chr15:73369200-73374600	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr15:73369600-73374200	Enhancers	Brain Hippocampus Middle	brain
8	chr15:73369600-73374400	Enhancers	Brain Cingulate Gyrus	brain
9	chr15:73370000-73373800	Enhancers	Rectal Mucosa Donor 31	rectum
10	chr15:73370200-73375600	Enhancers	Stomach Mucosa	stomach
11	chr15:73370600-73373800	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr15:73371000-73373200	Enhancers	Brain Inferior Temporal Lobe	brain
13	chr15:73371000-73375200	Weak transcription	Gastric	stomach
14	chr15:73371000-73376600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr15:73371200-73376800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr15:73371200-73388600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr15:73371200-73397000	Weak transcription	Pancreas	Pancrea
18	chr15:73371400-73375200	Weak transcription	A549	lung
19	chr15:73371600-73373800	Weak transcription	Fetal Intestine Large	intestine
20	chr15:73371600-73374000	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr15:73371600-73377400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr15:73371600-73393800	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr15:73371800-73375000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr15:73371800-73375200	Weak transcription	Rectal Smooth Muscle	rectum
25	chr15:73372200-73374000	Weak transcription	Duodenum Mucosa	Duodenum
26	chr15:73372200-73374200	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr15:73372200-73374400	Weak transcription	Fetal Intestine Small	intestine
28	chr15:73372200-73375200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr15:73372400-73373200	Enhancers	Small Intestine	intestine
30	chr15:73372400-73375000	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr15:73372400-73375200	Enhancers	Duodenum Smooth Muscle	Duodenum
32	chr15:73372600-73373200	Enhancers	Psoas Muscle	Psoas
33	chr15:73372600-73373200	Enhancers	Rectal Mucosa Donor 29	rectum
34	chr15:73372600-73373600	Enhancers	iPS-15b Cell Line	embryonic stem cell
35	chr15:73372600-73375000	Weak transcription	Liver	Liver
36	chr15:73372600-73375200	Weak transcription	Fetal Lung	lung
37	chr15:73372600-73375400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr15:73372800-73375200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
39	chr15:73373000-73373200	Enhancers	H1 Cell Line	embryonic stem cell
40	chr15:73373000-73373200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr15:73373000-73373200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr15:73373000-73373200	Enhancers	HUES64 Cell Line	embryonic stem cell
43	chr15:73373000-73373200	Enhancers	iPS-18 Cell Line	embryonic stem cell
44	chr15:73373000-73373200	Enhancers	Adipose Nuclei	Adipose
45	chr15:73373000-73373200	Enhancers	Right Atrium	heart
46	chr15:73373000-73373600	Weak transcription	Fetal Kidney	kidney

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