Variant report

Variant	rs62016800
Chromosome Location	chr15:73367210-73367211
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:73366653..73368204-chr15:73368418..73370771,2	MCF-7	breast:
2	chr15:73361985..73364590-chr15:73365433..73367284,2	K562	blood:
3	chr15:73344714..73346564-chr15:73366331..73368707,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000067141	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs1964543	0.90[ASN][1000 genomes]
rs62016808	0.86[ASN][1000 genomes]
rs62016813	0.90[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	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62016800	NEO1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73353800-73367400	Weak transcription	Fetal Intestine Small	intestine
2	chr15:73359200-73370600	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr15:73359600-73367400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr15:73361000-73372400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr15:73363400-73370200	Weak transcription	Ovary	ovary
6	chr15:73364800-73368200	Enhancers	Skeletal Muscle Female	skeletal muscle
7	chr15:73365000-73367600	Enhancers	Brain Hippocampus Middle	brain
8	chr15:73365000-73368400	Enhancers	Skeletal Muscle Male	skeletal muscle
9	chr15:73365000-73374000	Enhancers	Brain Angular Gyrus	brain
10	chr15:73365200-73368200	Enhancers	Rectal Mucosa Donor 31	rectum
11	chr15:73365400-73367600	Enhancers	Brain Substantia Nigra	brain
12	chr15:73365400-73368800	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr15:73365800-73367600	Enhancers	Pancreatic Islets	Pancreatic Islet
14	chr15:73365800-73370600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr15:73366000-73368000	Enhancers	Fetal Intestine Large	intestine
16	chr15:73366000-73368400	Enhancers	Fetal Brain Male	brain
17	chr15:73366000-73370800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr15:73366200-73367400	Enhancers	Brain Anterior Caudate	brain
19	chr15:73366200-73368400	Enhancers	Hela-S3	cervix
20	chr15:73366200-73369200	Enhancers	Brain Cingulate Gyrus	brain
21	chr15:73366600-73368200	Enhancers	Colon Smooth Muscle	Colon
22	chr15:73366600-73370200	Weak transcription	Stomach Mucosa	stomach
23	chr15:73366800-73367800	Enhancers	Sigmoid Colon	Sigmoid Colon
24	chr15:73366800-73368200	Enhancers	Muscle Satellite Cultured Cells	--
25	chr15:73366800-73370600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr15:73367000-73367800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr15:73367000-73367800	Enhancers	Brain Inferior Temporal Lobe	brain
28	chr15:73367000-73367800	Enhancers	NH-A	brain
29	chr15:73367000-73368000	Enhancers	Cortex derived primary cultured neurospheres	brain
30	chr15:73367000-73368000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr15:73367000-73368000	Enhancers	Small Intestine	intestine
32	chr15:73367000-73369200	Enhancers	Psoas Muscle	Psoas
33	chr15:73367000-73371800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
34	chr15:73367200-73367600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr15:73367200-73367600	Weak transcription	Aorta	Aorta
36	chr15:73367200-73367800	Weak transcription	Rectal Smooth Muscle	rectum
37	chr15:73367200-73368000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr15:73367200-73370000	Weak transcription	Duodenum Mucosa	Duodenum
39	chr15:73367200-73370200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
40	chr15:73367200-73370200	Weak transcription	Gastric	stomach
41	chr15:73367200-73370200	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr15:73367200-73370800	Weak transcription	Fetal Lung	lung

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