Variant report

Variant	rs1273765
Chromosome Location	chr6:121501983-121501984
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:121495458..121497370-chr6:121499505..121502108,2	MCF-7	breast:

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10428866	1.00[CEU][hapmap];0.92[CHB][hapmap];0.82[JPT][hapmap];0.97[ASN][1000 genomes]
rs11154003	0.89[ASN][1000 genomes]
rs1273719	1.00[CEU][hapmap]
rs1273773	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1273777	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1343072	0.89[ASN][1000 genomes]
rs1604279	0.89[ASN][1000 genomes]
rs17083186	1.00[CEU][hapmap]
rs17083373	1.00[CEU][hapmap]
rs17083415	1.00[CEU][hapmap]
rs17154	1.00[CEU][hapmap]
rs1776810	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1827299	0.89[ASN][1000 genomes]
rs2102102	0.86[ASN][1000 genomes]
rs2133991	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2133992	0.84[CHB][hapmap];0.85[ASN][1000 genomes]
rs2892765	1.00[CEU][hapmap]
rs2892766	0.83[ASN][1000 genomes]
rs35583988	0.89[ASN][1000 genomes]
rs4072142	1.00[CEU][hapmap]
rs4368847	0.97[ASN][1000 genomes]
rs4371872	1.00[CEU][hapmap]
rs4476866	0.84[CHB][hapmap];0.89[ASN][1000 genomes]
rs4584021	0.82[CEU][hapmap]
rs4610600	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4946547	0.84[CHB][hapmap];0.89[ASN][1000 genomes]
rs4946563	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs58729190	0.97[ASN][1000 genomes]
rs6569180	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6903467	1.00[CEU][hapmap]
rs6920884	0.82[CEU][hapmap]
rs6936507	0.86[ASN][1000 genomes]
rs7450022	0.84[CHB][hapmap];0.85[ASN][1000 genomes]
rs7451033	1.00[CEU][hapmap]
rs7741356	1.00[CEU][hapmap]
rs7742071	1.00[CEU][hapmap]
rs7743455	1.00[CEU][hapmap]
rs7744891	0.82[CEU][hapmap]
rs7749984	1.00[CEU][hapmap]
rs7761551	1.00[CEU][hapmap]
rs7765795	1.00[CEU][hapmap]
rs7767455	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs785400	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs785407	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs905024	0.84[CHB][hapmap];0.88[ASN][1000 genomes]
rs905025	0.83[CHB][hapmap];0.89[ASN][1000 genomes]
rs924528	0.87[ASN][1000 genomes]
rs9320793	0.89[ASN][1000 genomes]
rs9320794	0.83[CHB][hapmap];0.89[ASN][1000 genomes]
rs9320802	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9372640	0.84[CHB][hapmap];0.85[ASN][1000 genomes]
rs9372641	0.89[ASN][1000 genomes]
rs9372643	0.89[ASN][1000 genomes]
rs9372644	0.89[ASN][1000 genomes]
rs9372646	0.81[CHB][hapmap]
rs9372647	0.86[ASN][1000 genomes]
rs9375007	0.86[ASN][1000 genomes]
rs9375008	0.86[ASN][1000 genomes]
rs9375009	0.89[ASN][1000 genomes]
rs9375011	0.83[CHB][hapmap];0.86[ASN][1000 genomes]
rs9375012	0.84[CHB][hapmap];0.86[ASN][1000 genomes]
rs9387926	1.00[CEU][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]
rs9387928	0.89[ASN][1000 genomes]
rs9387930	0.86[ASN][1000 genomes]
rs9398623	0.83[CHB][hapmap];0.89[ASN][1000 genomes]
rs9398625	0.84[CHB][hapmap];0.86[ASN][1000 genomes]
rs9401373	0.89[ASN][1000 genomes]
rs9401374	0.84[CHB][hapmap];0.89[ASN][1000 genomes]
rs9401375	0.83[CHB][hapmap];0.88[ASN][1000 genomes]
rs9401376	0.89[ASN][1000 genomes]
rs9401377	0.89[ASN][1000 genomes]
rs9401378	1.00[CEU][hapmap];0.86[JPT][hapmap]
rs9401379	0.84[CHB][hapmap];0.89[ASN][1000 genomes]
rs9490136	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9490149	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][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	nsv1023384	chr6:121235867-121683448	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv530527	chr6:121298528-121789855	ZNF genes & repeats Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv604572	chr6:121465011-121544876	Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:121474600-121508600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:121475600-121508600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr6:121478800-121535400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr6:121479000-121505000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr6:121479200-121502600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr6:121480200-121502400	Weak transcription	Left Ventricle	heart
7	chr6:121480200-121504600	Weak transcription	Primary hematopoietic stem cells	blood
8	chr6:121480200-121535600	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr6:121480400-121505400	Weak transcription	Adipose Nuclei	Adipose
10	chr6:121480600-121502200	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr6:121480800-121535400	Weak transcription	Fetal Intestine Large	intestine
12	chr6:121481000-121502600	Weak transcription	Primary B cells from peripheral blood	blood
13	chr6:121481000-121535400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr6:121487400-121556000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr6:121494600-121516600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr6:121495200-121502200	Weak transcription	Brain Substantia Nigra	brain
17	chr6:121495200-121529400	Weak transcription	Primary B cells from cord blood	blood
18	chr6:121496400-121516600	Weak transcription	Fetal Muscle Trunk	muscle
19	chr6:121496800-121535400	Weak transcription	Fetal Lung	lung
20	chr6:121498000-121502600	Weak transcription	Fetal Brain Male	brain
21	chr6:121498000-121518000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr6:121498400-121504400	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr6:121498600-121502400	Weak transcription	Fetal Stomach	stomach
24	chr6:121498600-121535400	Weak transcription	Pancreas	Pancrea
25	chr6:121499000-121516000	Weak transcription	Aorta	Aorta
26	chr6:121499200-121509000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr6:121499600-121503000	Weak transcription	Brain Angular Gyrus	brain
28	chr6:121499800-121502200	Weak transcription	GM12878-XiMat	blood
29	chr6:121499800-121535800	Weak transcription	Primary T helper cells PMA-I stimulated	--
30	chr6:121500000-121504800	Weak transcription	Primary T cells fromperipheralblood	blood
31	chr6:121500000-121529000	Weak transcription	Primary T helper cells fromperipheralblood	blood
32	chr6:121500200-121502200	Weak transcription	Primary T cells from cord blood	blood
33	chr6:121500200-121502400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr6:121500200-121502400	Weak transcription	Dnd41	blood
35	chr6:121500200-121513800	Weak transcription	Ovary	ovary
36	chr6:121500400-121505800	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr6:121501600-121503200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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