Variant report

Variant	rs59785554
Chromosome Location	chr3:24490447-24490448
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:24481444..24484786-chr3:24488715..24492560,4	K562	blood:
2	chr3:24489242..24492071-chr3:24535616..24538264,2	MCF-7	breast:
3	chr3:24490199..24493862-chr3:24535942..24541957,6	K562	blood:
4	chr3:24460201..24461830-chr3:24489473..24491006,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000272554	Chromatin interaction
ENSG00000228791	Chromatin interaction
ENSG00000151090	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11711197	0.91[EUR][1000 genomes]
rs17014703	0.96[EUR][1000 genomes]
rs17014715	0.96[EUR][1000 genomes]
rs17014722	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58478419	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6792047	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834640	chr3:24339779-24493605	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv834641	chr3:24465862-24633738	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
3	nsv834642	chr3:24475558-24640593	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24477000-24493000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:24477200-24493000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:24478200-24491400	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr3:24478400-24493400	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr3:24482600-24493000	Weak transcription	Right Atrium	heart
6	chr3:24486400-24490800	Weak transcription	Psoas Muscle	Psoas
7	chr3:24488000-24491000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr3:24488600-24493000	Weak transcription	K562	blood
9	chr3:24488800-24492200	Enhancers	Stomach Mucosa	stomach
10	chr3:24488800-24497800	Enhancers	Fetal Intestine Small	intestine
11	chr3:24489200-24497400	Enhancers	Fetal Intestine Large	intestine
12	chr3:24489400-24490600	Enhancers	Small Intestine	intestine
13	chr3:24489400-24491200	Enhancers	HepG2	liver
14	chr3:24490000-24490800	Enhancers	Duodenum Mucosa	Duodenum
15	chr3:24490200-24490600	Enhancers	Skeletal Muscle Male	skeletal muscle
16	chr3:24490200-24491400	Enhancers	Skeletal Muscle Female	skeletal muscle
17	chr3:24490200-24492400	Enhancers	Colon Smooth Muscle	Colon
18	chr3:24490200-24492400	Enhancers	Pancreatic Islets	Pancreatic Islet
19	chr3:24490200-24494000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
20	chr3:24490400-24490800	Enhancers	Liver	Liver
21	chr3:24490400-24491000	Enhancers	Aorta	Aorta
22	chr3:24490400-24491000	Enhancers	Gastric	stomach
23	chr3:24490400-24491000	Enhancers	Left Ventricle	heart
24	chr3:24490400-24491000	Enhancers	Pancreas	Pancrea
25	chr3:24490400-24491000	Enhancers	Right Ventricle	heart
26	chr3:24490400-24492600	Enhancers	Fetal Lung	lung
27	chr3:24490400-24493000	Enhancers	Hela-S3	cervix

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