Variant report

Variant	rs17021276
Chromosome Location	chr3:28283829-28283830
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:28239745..28241981-chr3:28283804..28285570,2	K562	blood:
2	chr3:28281324..28283221-chr3:28283797..28285477,2	MCF-7	breast:
3	chr3:27809091..27811798-chr3:28283173..28285576,2	MCF-7	breast:
4	chr3:28282338..28284629-chr3:28303115..28305823,2	K562	blood:
5	chr3:28279814..28284603-chr3:28388127..28392296,9	K562	blood:
6	chr3:28283572..28286334-chr3:28300676..28304694,4	K562	blood:
7	chr3:28279814..28285757-chr3:28388127..28392208,14	K562	blood:

Variant related genes	Relation type
ENSG00000163512	Chromatin interaction
ENSG00000206559	Chromatin interaction
ENSG00000187118	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10510608	1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11914283	1.00[EUR][1000 genomes]
rs11914462	1.00[EUR][1000 genomes]
rs11914828	1.00[EUR][1000 genomes]
rs11917441	1.00[EUR][1000 genomes]
rs11918676	1.00[EUR][1000 genomes]
rs11921493	0.83[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11923319	0.92[AMR][1000 genomes]
rs11924235	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17021326	1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1845166	0.95[YRI][hapmap];0.83[AFR][1000 genomes]
rs1955313	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34490679	1.00[EUR][1000 genomes]
rs4680903	0.82[AFR][1000 genomes]
rs55859737	1.00[EUR][1000 genomes]
rs55983177	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56316071	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56854865	1.00[EUR][1000 genomes]
rs59014991	1.00[EUR][1000 genomes]
rs59574091	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60199196	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60457049	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60812941	1.00[EUR][1000 genomes]
rs61107194	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61120501	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6796693	0.85[AMR][1000 genomes]
rs72898218	0.89[AFR][1000 genomes]
rs72898222	0.89[AFR][1000 genomes]
rs73822328	1.00[EUR][1000 genomes]
rs73822329	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73822336	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73822564	0.92[AFR][1000 genomes]
rs73822566	0.85[AMR][1000 genomes]
rs73822577	1.00[EUR][1000 genomes]
rs73822578	1.00[EUR][1000 genomes]
rs73825127	1.00[EUR][1000 genomes]
rs73825128	1.00[EUR][1000 genomes]
rs73825130	1.00[EUR][1000 genomes]
rs73825142	1.00[EUR][1000 genomes]
rs73825144	1.00[EUR][1000 genomes]
rs73825146	1.00[EUR][1000 genomes]
rs73825147	1.00[EUR][1000 genomes]
rs73825148	1.00[EUR][1000 genomes]
rs73825149	1.00[EUR][1000 genomes]
rs73825152	1.00[EUR][1000 genomes]
rs73825156	1.00[EUR][1000 genomes]
rs73825163	1.00[EUR][1000 genomes]
rs73825165	1.00[EUR][1000 genomes]
rs73825167	1.00[EUR][1000 genomes]
rs7642252	1.00[EUR][1000 genomes]
rs7642709	1.00[EUR][1000 genomes]
rs9682725	1.00[EUR][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	esv3328565	chr3:27991169-28915035	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv876649	chr3:28126595-28718454	Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:28282000-28284000	Active TSS	H9 Cell Line	embryonic stem cell
2	chr3:28282000-28284000	Active TSS	Ovary	ovary
3	chr3:28282000-28284600	Active TSS	ES-I3 Cell Line	embryonic stem cell
4	chr3:28282200-28284200	Active TSS	Right Atrium	heart
5	chr3:28282200-28284400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr3:28282400-28284000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
7	chr3:28282400-28284000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr3:28282400-28284000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr3:28282400-28284000	Active TSS	Aorta	Aorta
10	chr3:28282400-28284000	Active TSS	Fetal Muscle Trunk	muscle
11	chr3:28282400-28284000	Active TSS	Left Ventricle	heart
12	chr3:28282400-28284200	Active TSS	Psoas Muscle	Psoas
13	chr3:28282400-28284400	Active TSS	Colonic Mucosa	Colon
14	chr3:28282400-28284400	Active TSS	Fetal Brain Male	brain
15	chr3:28282600-28284000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr3:28282600-28284000	Active TSS	Esophagus	oesophagus
17	chr3:28282600-28284000	Active TSS	Fetal Intestine Small	intestine
18	chr3:28282600-28284000	Active TSS	Fetal Lung	lung
19	chr3:28282600-28284000	Active TSS	Gastric	stomach
20	chr3:28282600-28284000	Active TSS	Rectal Smooth Muscle	rectum
21	chr3:28282600-28284000	Active TSS	Sigmoid Colon	Sigmoid Colon
22	chr3:28282600-28284000	Active TSS	Small Intestine	intestine
23	chr3:28282600-28284000	Active TSS	Stomach Smooth Muscle	stomach
24	chr3:28282600-28284000	Active TSS	GM12878-XiMat	blood
25	chr3:28282600-28284000	Active TSS	HSMMtube	muscle
26	chr3:28282600-28284200	Active TSS	iPS-20b Cell Line	embryonic stem cell
27	chr3:28282600-28284200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr3:28282600-28284200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
29	chr3:28282600-28284200	Active TSS	Fetal Stomach	stomach
30	chr3:28282600-28284200	Active TSS	NHLF	lung
31	chr3:28282600-28284400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr3:28282600-28284400	Active TSS	Brain Anterior Caudate	brain
33	chr3:28282600-28284400	Active TSS	Stomach Mucosa	stomach
34	chr3:28282600-28284600	Active TSS	A549	lung
35	chr3:28282800-28284000	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr3:28282800-28284000	Active TSS	Muscle Satellite Cultured Cells	--
37	chr3:28282800-28284000	Active TSS	HSMM	muscle
38	chr3:28282800-28284200	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr3:28282800-28284200	Active TSS	HUES64 Cell Line	embryonic stem cell
40	chr3:28282800-28284200	Active TSS	HMEC	breast
41	chr3:28282800-28284400	Active TSS	HUES48 Cell Line	embryonic stem cell
42	chr3:28282800-28284400	Active TSS	iPS-15b Cell Line	embryonic stem cell
43	chr3:28282800-28284400	Active TSS	Fetal Kidney	kidney
44	chr3:28282800-28284600	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr3:28282800-28284600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr3:28282800-28284600	Active TSS	HUES6 Cell Line	embryonic stem cell
47	chr3:28283200-28284400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr3:28283400-28284000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
49	chr3:28283400-28284000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr3:28283400-28284000	Flanking Active TSS	Fetal Thymus	thymus

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