Variant report

Variant	rs3773726
Chromosome Location	chr3:53206065-53206066
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:53204421..53206931-chr3:53208299..53209885,2	MCF-7	breast:
2	chr3:53204795..53206722-chr3:53230021..53232845,2	K562	blood:
3	chr3:53199183..53202732-chr3:53204136..53207026,5	K562	blood:
4	chr3:53194470..53197152-chr3:53205968..53208178,2	MCF-7	breast:
5	chr3:53198720..53200683-chr3:53205526..53209327,4	K562	blood:

Variant related genes	Relation type
ENSG00000163932	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11924565	0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1483185	0.91[CHB][hapmap];0.90[JPT][hapmap];0.90[ASN][1000 genomes]
rs1483186	0.84[CHB][hapmap];0.90[JPT][hapmap];0.93[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1483187	0.93[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2242305	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2306571	0.90[JPT][hapmap]
rs3773724	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3773727	0.81[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3773729	0.90[JPT][hapmap]
rs3773731	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3773733	0.85[CHB][hapmap];0.90[JPT][hapmap];0.90[ASN][1000 genomes]
rs3821689	0.90[JPT][hapmap]
rs57046386	0.93[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs62254282	0.93[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6775022	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6778964	0.90[JPT][hapmap]
rs6797662	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72537447	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7630325	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][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	nsv834699	chr3:53151876-53325808	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv517233	chr3:53175557-53321002	Transcr. at gene 5' and 3' Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:53196400-53210200	Weak transcription	Psoas Muscle	Psoas
2	chr3:53196400-53212400	Weak transcription	Aorta	Aorta
3	chr3:53197200-53213400	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr3:53197400-53207000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr3:53197600-53206600	Genic enhancers	Fetal Intestine Small	intestine
6	chr3:53197600-53206800	Weak transcription	Primary T cells from cord blood	blood
7	chr3:53197600-53227600	Weak transcription	Hela-S3	cervix
8	chr3:53197800-53214000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr3:53198000-53206800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr3:53198000-53215600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr3:53200200-53206400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr3:53200200-53207200	Enhancers	Fetal Thymus	thymus
13	chr3:53200400-53206200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr3:53200600-53206200	Enhancers	Primary T cells fromperipheralblood	blood
15	chr3:53200600-53206200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr3:53200600-53206400	Enhancers	Cortex derived primary cultured neurospheres	brain
17	chr3:53200600-53206800	Enhancers	ES-I3 Cell Line	embryonic stem cell
18	chr3:53200600-53229600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr3:53200800-53207200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
20	chr3:53201000-53206600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr3:53201000-53207000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
22	chr3:53201200-53210400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr3:53201400-53212400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr3:53201400-53212600	Weak transcription	Ovary	ovary
25	chr3:53201400-53212800	Weak transcription	Left Ventricle	heart
26	chr3:53201600-53206200	Weak transcription	NHLF	lung
27	chr3:53201600-53206400	Enhancers	Fetal Intestine Large	intestine
28	chr3:53201600-53209400	Weak transcription	HSMM	muscle
29	chr3:53201600-53212800	Weak transcription	NHDF-Ad	bronchial
30	chr3:53201600-53228000	Weak transcription	NH-A	brain
31	chr3:53202000-53207800	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr3:53202000-53209400	Weak transcription	Osteobl	bone
33	chr3:53202000-53212400	Weak transcription	Colon Smooth Muscle	Colon
34	chr3:53202000-53212600	Weak transcription	Primary T helper cells PMA-I stimulated	--
35	chr3:53202000-53228400	Weak transcription	Fetal Kidney	kidney
36	chr3:53202400-53208400	Weak transcription	NHEK	skin
37	chr3:53202800-53206400	Weak transcription	Right Atrium	heart
38	chr3:53202800-53229600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr3:53203200-53207200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr3:53203200-53207800	Weak transcription	Right Ventricle	heart
41	chr3:53203200-53226800	Strong transcription	Fetal Stomach	stomach
42	chr3:53203600-53211400	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
43	chr3:53203600-53212800	Weak transcription	HUES48 Cell Line	embryonic stem cell
44	chr3:53203600-53229800	Weak transcription	A549	lung
45	chr3:53203800-53206600	Enhancers	Primary hematopoietic stem cells	blood
46	chr3:53203800-53206800	Genic enhancers	Gastric	stomach
47	chr3:53203800-53207000	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr3:53203800-53210600	Genic enhancers	Spleen	Spleen
49	chr3:53204000-53206600	Enhancers	Stomach Mucosa	stomach
50	chr3:53204000-53207400	Enhancers	Fetal Muscle Trunk	muscle

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