Variant report

Variant	rs59949331
Chromosome Location	chr3:24631440-24631441
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:24562368..24564419-chr3:24630308..24632116,2	MCF-7	breast:
2	chr3:24536512..24538527-chr3:24630331..24633060,2	MCF-7	breast:
3	chr3:24561637..24564260-chr3:24630059..24632291,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000151090	Chromatin interaction
ENSG00000228791	Chromatin interaction
ENSG00000265028	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs17014779	0.85[AMR][1000 genomes]
rs17014781	0.85[AMR][1000 genomes]
rs17014785	0.85[AMR][1000 genomes]
rs17014802	0.85[AMR][1000 genomes]
rs17014812	0.85[AMR][1000 genomes]
rs2117875	0.85[AMR][1000 genomes]
rs57992030	0.85[AMR][1000 genomes]
rs59006616	0.85[AMR][1000 genomes]
rs59393738	0.85[AMR][1000 genomes]
rs60074554	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs60182949	0.85[AMR][1000 genomes]
rs60506138	0.85[AMR][1000 genomes]
rs61670515	0.85[AMR][1000 genomes]
rs6791260	0.85[AMR][1000 genomes]
rs73139205	0.85[AMR][1000 genomes]
rs73139211	0.85[AMR][1000 genomes]
rs73139213	0.85[AMR][1000 genomes]
rs73139244	0.85[AMR][1000 genomes]
rs73139256	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73141118	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73141130	0.85[AMR][1000 genomes]
rs73141137	0.85[AMR][1000 genomes]
rs73141141	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73141154	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73141157	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73141168	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73141171	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73152159	0.85[AMR][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	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	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:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24621200-24633400	Weak transcription	K562	blood
2	chr3:24628800-24633000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:24629600-24631800	Enhancers	Colon Smooth Muscle	Colon
4	chr3:24629600-24631800	Flanking Active TSS	Fetal Intestine Small	intestine
5	chr3:24629600-24632000	Enhancers	Duodenum Mucosa	Duodenum
6	chr3:24629600-24632000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr3:24629600-24632200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr3:24629600-24633600	Enhancers	Rectal Mucosa Donor 31	rectum
9	chr3:24629800-24631800	Enhancers	Rectal Smooth Muscle	rectum
10	chr3:24629800-24632000	Enhancers	Fetal Stomach	stomach
11	chr3:24629800-24633200	Enhancers	Fetal Lung	lung
12	chr3:24630000-24632000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr3:24630000-24632000	Enhancers	Fetal Kidney	kidney
14	chr3:24630200-24631600	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr3:24630600-24632800	Weak transcription	Stomach Mucosa	stomach
16	chr3:24630800-24632000	Enhancers	Brain Germinal Matrix	brain
17	chr3:24630800-24634200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr3:24630800-24640800	Weak transcription	Small Intestine	intestine
19	chr3:24631000-24631600	Active TSS	Primary hematopoietic stem cells	blood
20	chr3:24631000-24631800	Active TSS	Rectal Mucosa Donor 29	rectum
21	chr3:24631000-24632000	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr3:24631000-24632800	Enhancers	HUVEC	blood vessel
23	chr3:24631200-24636000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr3:24631400-24631800	Flanking Active TSS	Fetal Intestine Large	intestine
25	chr3:24631400-24631800	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr3:24631400-24632400	Enhancers	NHDF-Ad	bronchial
27	chr3:24631400-24634600	Enhancers	HMEC	breast
28	chr3:24631400-24635200	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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