Variant report

Variant	rs56035340
Chromosome Location	chr3:24549172-24549173
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:24543533..24545427-chr3:24547333..24549545,2	K562	blood:
2	chr3:24535073..24541427-chr3:24545752..24549370,7	MCF-7	breast:
3	chr3:24534479..24539523-chr3:24548972..24553624,9	MCF-7	breast:
4	chr3:23986883..23988748-chr3:24547232..24549408,2	K562	blood:
5	chr3:24541351..24543279-chr3:24546883..24549843,2	MCF-7	breast:
6	chr3:24504143..24505671-chr3:24547966..24550794,2	K562	blood:
7	chr3:24548678..24551507-chr3:24625881..24628494,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000228791	Chromatin interaction
ENSG00000272554	Chromatin interaction
ENSG00000197885	Chromatin interaction
ENSG00000174738	Chromatin interaction
ENSG00000151090	Chromatin interaction

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

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

rs_ID	r²[population]
rs55661339	1.00[AMR][1000 genomes]
rs55929411	0.82[AFR][1000 genomes]
rs55936680	1.00[AMR][1000 genomes]
rs61078139	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823333	1.00[AMR][1000 genomes]
rs73823341	1.00[AMR][1000 genomes]
rs73823344	1.00[AMR][1000 genomes]
rs73823346	1.00[AMR][1000 genomes]
rs73823349	0.89[AFR][1000 genomes]
rs73823350	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823353	1.00[AMR][1000 genomes]
rs73823354	1.00[AMR][1000 genomes]
rs73823355	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	nsv1012975	chr3:24500706-24615644	Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
4	nsv999384	chr3:24525345-24656873	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24538200-24552000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:24538200-24560600	Weak transcription	Aorta	Aorta
3	chr3:24539000-24560200	Weak transcription	HepG2	liver
4	chr3:24542800-24549400	Weak transcription	HSMM	muscle
5	chr3:24543800-24549200	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr3:24546400-24550600	Enhancers	NHDF-Ad	bronchial
7	chr3:24547000-24550600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr3:24547400-24549600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr3:24547600-24550000	Enhancers	Rectal Mucosa Donor 31	rectum
10	chr3:24547800-24550400	Enhancers	Primary B cells from cord blood	blood
11	chr3:24547800-24551200	Weak transcription	Duodenum Mucosa	Duodenum
12	chr3:24548600-24550000	Enhancers	Monocytes-CD14+_RO01746	blood
13	chr3:24548600-24550400	Enhancers	Primary B cells from peripheral blood	blood
14	chr3:24548600-24551000	Enhancers	Muscle Satellite Cultured Cells	--
15	chr3:24548600-24551600	Enhancers	Stomach Mucosa	stomach
16	chr3:24548600-24552200	Enhancers	K562	blood
17	chr3:24548800-24549400	Enhancers	Fetal Intestine Large	intestine
18	chr3:24548800-24549600	Enhancers	Primary monocytes fromperipheralblood	blood
19	chr3:24548800-24550000	Enhancers	HUVEC	blood vessel
20	chr3:24548800-24550200	Enhancers	iPS-15b Cell Line	embryonic stem cell
21	chr3:24548800-24550400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr3:24548800-24550600	Enhancers	Fetal Intestine Small	intestine
23	chr3:24548800-24552200	Enhancers	NHEK	skin
24	chr3:24549000-24549200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr3:24549000-24549400	Enhancers	ES-I3 Cell Line	embryonic stem cell
26	chr3:24549000-24549400	Enhancers	iPS-18 Cell Line	embryonic stem cell
27	chr3:24549000-24549600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr3:24549000-24549600	Enhancers	Sigmoid Colon	Sigmoid Colon
29	chr3:24549000-24550400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr3:24549000-24550400	Enhancers	Skeletal Muscle Female	skeletal muscle
31	chr3:24549000-24550400	Enhancers	NHLF	lung
32	chr3:24549000-24551400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr3:24549000-24551800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr3:24549000-24552400	Enhancers	Breast Myoepithelial Primary Cells	Breast
35	chr3:24549000-24552400	Enhancers	HMEC	breast

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