Variant report

Variant	rs6664387
Chromosome Location	chr1:151021509-151021510
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:150979769..150983967-chr1:151018069..151024059,8	MCF-7	breast:
2	chr1:151021444..151023806-chr17:57921361..57924226,2	MCF-7	breast:
3	chr1:151008538..151012828-chr1:151019200..151022428,4	K562	blood:
4	chr1:150995615..151002939-chr1:151018225..151024612,15	MCF-7	breast:
5	chr1:150037974..150040351-chr1:151020175..151022098,2	MCF-7	breast:
6	chr1:150942596..150945124-chr1:151020280..151022010,2	MCF-7	breast:
7	chr1:150974834..150982774-chr1:151014282..151023779,19	MCF-7	breast:
8	chr1:151020969..151022652-chr1:151136172..151138973,3	MCF-7	breast:
9	chr1:150995720..151000061-chr1:151021068..151023867,4	K562	blood:
10	chr1:150943913..150947004-chr1:151018258..151022109,4	MCF-7	breast:
11	chr1:150996737..150998104-chr1:151020589..151021609,10	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000143418	Chromatin interaction
ENSG00000136631	Chromatin interaction
ENSG00000163141	Chromatin interaction
ENSG00000143409	Chromatin interaction
ENSG00000163155	Chromatin interaction
ENSG00000163156	Chromatin interaction
ENSG00000231073	Chromatin interaction
ENSG00000143363	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11204755	0.84[CEU][hapmap]
rs11204765	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11204766	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11204774	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11204775	0.83[AMR][1000 genomes]
rs12067174	1.00[ASW][hapmap]
rs12068365	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12068631	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12070256	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12070288	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12074309	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap]
rs12078857	0.84[ASW][hapmap];0.90[MKK][hapmap];0.87[YRI][hapmap]
rs12088941	0.82[ASW][hapmap];0.91[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap]
rs12089658	0.82[ASW][hapmap];1.00[MEX][hapmap]
rs12090246	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap]
rs1673161	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs16832976	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3002292	0.83[EUR][1000 genomes]
rs41266632	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4418603	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6689566	1.00[GIH][hapmap]
rs6695311	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7526955	1.00[ASW][hapmap];0.84[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7537292	1.00[CEU][hapmap];0.93[YRI][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs955955	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][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	nsv1001897	chr1:150743271-151241600	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
2	nsv535158	chr1:150743271-151241600	Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
3	nsv522840	chr1:150933723-151347746	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
4	nsv916272	chr1:150961809-151557253	Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	219 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:151019600-151021600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr1:151019800-151021600	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr1:151019800-151021600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr1:151019800-151021600	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr1:151019800-151021600	Active TSS	iPS-18 Cell Line	embryonic stem cell
6	chr1:151019800-151021600	Active TSS	iPS-20b Cell Line	embryonic stem cell
7	chr1:151019800-151021600	Flanking Active TSS	NHEK	skin
8	chr1:151020000-151021600	Active TSS	Brain Angular Gyrus	brain
9	chr1:151020000-151021600	Active TSS	Fetal Kidney	kidney
10	chr1:151020000-151021600	Active TSS	Pancreatic Islets	Pancreatic Islet
11	chr1:151020000-151021600	Active TSS	K562	blood
12	chr1:151020200-151021600	Active TSS	HUES48 Cell Line	embryonic stem cell
13	chr1:151020600-151021600	Flanking Active TSS	Primary T cells from cord blood	blood
14	chr1:151020600-151021600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr1:151020600-151021600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
16	chr1:151020600-151021600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr1:151020600-151021600	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
18	chr1:151020600-151021600	Flanking Active TSS	HUVEC	blood vessel
19	chr1:151020600-151021600	Flanking Active TSS	NH-A	brain
20	chr1:151020800-151021600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr1:151020800-151021600	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
22	chr1:151020800-151021600	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
23	chr1:151020800-151021600	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
24	chr1:151020800-151021600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr1:151020800-151021600	Flanking Active TSS	Duodenum Mucosa	Duodenum
26	chr1:151020800-151021600	Flanking Active TSS	Fetal Brain Male	brain
27	chr1:151020800-151021600	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
28	chr1:151021000-151021600	Enhancers	Primary hematopoietic stem cells	blood
29	chr1:151021000-151021600	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr1:151021000-151021600	Flanking Active TSS	Brain Hippocampus Middle	brain
31	chr1:151021000-151021600	Flanking Active TSS	Brain Substantia Nigra	brain
32	chr1:151021000-151021600	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
33	chr1:151021000-151021600	Flanking Active TSS	Right Atrium	heart
34	chr1:151021000-151021600	Enhancers	Spleen	Spleen
35	chr1:151021000-151021600	Flanking Active TSS	HSMMtube	muscle
36	chr1:151021000-151021600	Flanking Active TSS	Osteobl	bone
37	chr1:151021000-151021800	Flanking Active TSS	Fetal Brain Female	brain
38	chr1:151021000-151023600	Enhancers	Sigmoid Colon	Sigmoid Colon
39	chr1:151021200-151021600	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
40	chr1:151021200-151021600	Flanking Active TSS	H1 Cell Line	embryonic stem cell
41	chr1:151021200-151021600	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
42	chr1:151021200-151021600	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
43	chr1:151021200-151021600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr1:151021200-151021600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr1:151021200-151021600	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
46	chr1:151021200-151021600	Flanking Active TSS	Brain Germinal Matrix	brain
47	chr1:151021200-151021600	Flanking Active TSS	Fetal Heart	heart
48	chr1:151021200-151021600	Flanking Active TSS	Fetal Lung	lung
49	chr1:151021200-151021600	Enhancers	Placenta Amnion	Placenta Amnion
50	chr1:151021200-151021600	Flanking Active TSS	A549	lung

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