Variant report

Variant	rs7625729
Chromosome Location	chr3:141112487-141112488
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:141105114..141109400-chr3:141110714..141114330,6	K562	blood:
2	chr3:141063827..141066519-chr3:141112443..141114926,2	K562	blood:
3	chr3:141110512..141116314-chr3:141119698..141124103,10	MCF-7	breast:
4	chr3:141089481..141091157-chr3:141111854..141114623,2	K562	blood:
5	chr3:141110442..141112822-chr3:141113181..141115807,2	MCF-7	breast:
6	chr3:141111002..141115062-chr3:141118587..141124023,6	MCF-7	breast:
7	chr3:141085707..141088677-chr3:141112323..141114105,2	MCF-7	breast:
8	chr3:141110266..141112911-chr3:141118799..141121045,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000249417	Chromatin interaction
ENSG00000177311	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs16851365	1.00[AMR][1000 genomes]
rs16851408	0.95[YRI][hapmap];0.83[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs55755373	1.00[AMR][1000 genomes]
rs59655257	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59876827	1.00[AMR][1000 genomes]
rs6764191	0.92[YRI][hapmap];0.80[AFR][1000 genomes]
rs6790603	1.00[AMR][1000 genomes]
rs6792546	0.82[YRI][hapmap]
rs6801329	0.84[YRI][hapmap]
rs73869587	1.00[AMR][1000 genomes]
rs73869601	1.00[AMR][1000 genomes]
rs73872722	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs9845854	0.84[YRI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829744	chr3:141016749-141189168	Genic enhancers Strong transcription Transcr. at gene 5' and 3' Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141089200-141115800	Weak transcription	Psoas Muscle	Psoas
2	chr3:141098600-141115200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr3:141106000-141115400	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr3:141106000-141115800	Weak transcription	Right Ventricle	heart
5	chr3:141106000-141117000	Strong transcription	Fetal Intestine Large	intestine
6	chr3:141106000-141119000	Weak transcription	Colonic Mucosa	Colon
7	chr3:141106600-141113600	Weak transcription	K562	blood
8	chr3:141106800-141114800	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr3:141106800-141119200	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr3:141108000-141115200	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr3:141108000-141116000	Weak transcription	Rectal Smooth Muscle	rectum
12	chr3:141108200-141113200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:141108200-141115200	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr3:141108400-141114600	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr3:141108400-141115400	Weak transcription	Liver	Liver
16	chr3:141108400-141118200	Weak transcription	Stomach Smooth Muscle	stomach
17	chr3:141108400-141118600	Weak transcription	Small Intestine	intestine
18	chr3:141108800-141114800	Weak transcription	HUVEC	blood vessel
19	chr3:141109600-141113200	Strong transcription	Fetal Intestine Small	intestine
20	chr3:141109800-141112600	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr3:141109800-141112800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr3:141109800-141113400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
23	chr3:141110000-141112600	Enhancers	HepG2	liver
24	chr3:141110000-141112800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr3:141110200-141112800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr3:141110200-141112800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
27	chr3:141110200-141112800	Enhancers	Brain Angular Gyrus	brain
28	chr3:141110200-141112800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
29	chr3:141110200-141112800	Enhancers	Fetal Lung	lung
30	chr3:141110200-141112800	Enhancers	Placenta Amnion	Placenta Amnion
31	chr3:141110200-141113200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr3:141110400-141112800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr3:141110400-141112800	Enhancers	Brain Substantia Nigra	brain
34	chr3:141110400-141118000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr3:141110600-141112800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
36	chr3:141110600-141112800	Enhancers	Brain Anterior Caudate	brain
37	chr3:141110800-141112800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr3:141110800-141112800	Enhancers	Ovary	ovary
39	chr3:141111000-141112600	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr3:141111000-141112600	Enhancers	Right Atrium	heart
41	chr3:141111000-141112800	Enhancers	ES-I3 Cell Line	embryonic stem cell
42	chr3:141111000-141112800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr3:141111200-141112800	Enhancers	H1 Cell Line	embryonic stem cell
44	chr3:141111200-141112800	Enhancers	H9 Cell Line	embryonic stem cell
45	chr3:141111200-141112800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr3:141111200-141113000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr3:141111200-141113000	Enhancers	Brain Hippocampus Middle	brain
48	chr3:141111400-141112800	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr3:141111400-141112800	Enhancers	Hela-S3	cervix
50	chr3:141111400-141114800	Weak transcription	Aorta	Aorta

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