Variant report

Variant	rs72990340
Chromosome Location	chr3:141243371-141243372
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:141204551..141207938-chr3:141241119..141245308,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000155903	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs58556651	0.91[AFR][1000 genomes]
rs60984011	0.96[AFR][1000 genomes]
rs72990349	0.96[AFR][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	nsv1006237	chr3:141227525-141300722	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1014365	chr3:141235379-141282615	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141207000-141255000	Weak transcription	Aorta	Aorta
2	chr3:141210400-141248000	Weak transcription	NHLF	lung
3	chr3:141217800-141258400	Weak transcription	Psoas Muscle	Psoas
4	chr3:141226600-141254400	Weak transcription	Brain Cingulate Gyrus	brain
5	chr3:141228400-141246600	Strong transcription	Dnd41	blood
6	chr3:141229400-141267400	Weak transcription	Fetal Heart	heart
7	chr3:141230000-141259800	Weak transcription	Small Intestine	intestine
8	chr3:141231200-141245000	Strong transcription	Fetal Thymus	thymus
9	chr3:141231600-141254400	Weak transcription	Fetal Kidney	kidney
10	chr3:141231600-141263600	Weak transcription	Fetal Brain Male	brain
11	chr3:141232200-141245600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr3:141232200-141254400	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr3:141232600-141244400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:141234000-141254400	Weak transcription	Right Ventricle	heart
15	chr3:141236200-141281600	Weak transcription	Colon Smooth Muscle	Colon
16	chr3:141236400-141243400	Strong transcription	Monocytes-CD14+_RO01746	blood
17	chr3:141236400-141244200	Weak transcription	Pancreas	Pancrea
18	chr3:141236400-141245200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr3:141236400-141249000	Weak transcription	Right Atrium	heart
20	chr3:141236400-141254400	Weak transcription	Brain Angular Gyrus	brain
21	chr3:141236400-141254400	Weak transcription	Left Ventricle	heart
22	chr3:141236400-141276000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr3:141236400-141301000	Weak transcription	Brain Substantia Nigra	brain
24	chr3:141236400-141306600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr3:141236600-141244200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
26	chr3:141236600-141244200	Weak transcription	Liver	Liver
27	chr3:141236600-141244600	Weak transcription	Pancreatic Islets	Pancreatic Islet
28	chr3:141236600-141244800	Weak transcription	Colonic Mucosa	Colon
29	chr3:141236600-141247600	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr3:141236600-141247800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr3:141236600-141248400	Weak transcription	Adipose Nuclei	Adipose
32	chr3:141236600-141254400	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr3:141236600-141254400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr3:141236600-141254400	Weak transcription	Esophagus	oesophagus
35	chr3:141236600-141263200	Weak transcription	Brain Germinal Matrix	brain
36	chr3:141236600-141275800	Weak transcription	Placenta Amnion	Placenta Amnion
37	chr3:141236600-141297000	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr3:141236600-141299400	Weak transcription	Gastric	stomach
39	chr3:141237000-141248600	Weak transcription	Brain Anterior Caudate	brain
40	chr3:141237000-141265400	Weak transcription	Brain Hippocampus Middle	brain
41	chr3:141237000-141299400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr3:141237400-141243400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr3:141238000-141245600	Weak transcription	HMEC	breast
44	chr3:141238400-141244800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
45	chr3:141238600-141253800	Weak transcription	Duodenum Mucosa	Duodenum
46	chr3:141239400-141245400	Weak transcription	HUES6 Cell Line	embryonic stem cell
47	chr3:141239400-141254400	Weak transcription	Placenta	Placenta
48	chr3:141239800-141244800	Weak transcription	HUES48 Cell Line	embryonic stem cell
49	chr3:141240000-141245400	Weak transcription	HUES64 Cell Line	embryonic stem cell
50	chr3:141240000-141245400	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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