Variant report

Variant	rs9289634
Chromosome Location	chr3:141251655-141251656
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:141250145..141252902-chr3:141268773..141271579,3	K562	blood:
2	chr3:141204699..141206846-chr3:141251081..141253814,2	MCF-7	breast:
3	chr3:141250798..141253020-chr3:141258237..141261011,2	K562	blood:

Variant related genes	Relation type
ENSG00000155903	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1077181	0.88[CEU][hapmap]
rs11557453	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11707656	0.85[EUR][1000 genomes]
rs11708253	0.83[EUR][1000 genomes]
rs11709875	0.92[CEU][hapmap]
rs11711318	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11713714	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11714208	0.92[CEU][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11716776	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11717144	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11717842	0.96[CEU][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12695734	0.83[EUR][1000 genomes]
rs12695735	0.88[CEU][hapmap];0.82[EUR][1000 genomes]
rs12695736	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12695740	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12695741	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12695743	0.92[CEU][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13059128	0.80[CEU][hapmap]
rs13067519	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13068454	0.80[EUR][1000 genomes]
rs13072100	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs13078872	0.96[CEU][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13083593	0.96[CEU][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13084444	0.96[CEU][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13088429	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs13095168	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13099945	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1863870	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs2312194	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34317570	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34342794	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3732872	1.00[JPT][hapmap]
rs3806647	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4334619	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6769161	1.00[JPT][hapmap]
rs71619392	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs720663	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7624941	1.00[JPT][hapmap]
rs7649666	1.00[JPT][hapmap]
rs7651511	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9289629	0.96[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9808953	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9822575	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9823528	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9829588	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9830055	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9833121	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9836050	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9836818	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9837202	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs9838230	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9838419	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9840159	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9840697	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9843866	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9849180	0.96[CEU][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9850416	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9851256	1.00[CHB][hapmap]
rs9865971	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9868956	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9870749	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9873042	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[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	nsv1006237	chr3:141227525-141300722	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1014365	chr3:141235379-141282615	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141207000-141255000	Weak transcription	Aorta	Aorta
2	chr3:141217800-141258400	Weak transcription	Psoas Muscle	Psoas
3	chr3:141226600-141254400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:141229400-141267400	Weak transcription	Fetal Heart	heart
5	chr3:141230000-141259800	Weak transcription	Small Intestine	intestine
6	chr3:141231600-141254400	Weak transcription	Fetal Kidney	kidney
7	chr3:141231600-141263600	Weak transcription	Fetal Brain Male	brain
8	chr3:141232200-141254400	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr3:141234000-141254400	Weak transcription	Right Ventricle	heart
10	chr3:141236200-141281600	Weak transcription	Colon Smooth Muscle	Colon
11	chr3:141236400-141254400	Weak transcription	Brain Angular Gyrus	brain
12	chr3:141236400-141254400	Weak transcription	Left Ventricle	heart
13	chr3:141236400-141276000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr3:141236400-141301000	Weak transcription	Brain Substantia Nigra	brain
15	chr3:141236400-141306600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr3:141236600-141254400	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr3:141236600-141254400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr3:141236600-141254400	Weak transcription	Esophagus	oesophagus
19	chr3:141236600-141263200	Weak transcription	Brain Germinal Matrix	brain
20	chr3:141236600-141275800	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr3:141236600-141297000	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr3:141236600-141299400	Weak transcription	Gastric	stomach
23	chr3:141237000-141265400	Weak transcription	Brain Hippocampus Middle	brain
24	chr3:141237000-141299400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr3:141238600-141253800	Weak transcription	Duodenum Mucosa	Duodenum
26	chr3:141239400-141254400	Weak transcription	Placenta	Placenta
27	chr3:141240200-141254400	Weak transcription	K562	blood
28	chr3:141241400-141253800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr3:141241800-141263600	Weak transcription	Fetal Brain Female	brain
30	chr3:141242200-141263600	Weak transcription	Rectal Smooth Muscle	rectum
31	chr3:141242200-141274800	Weak transcription	Lung	lung
32	chr3:141242600-141252200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
33	chr3:141242800-141253000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
34	chr3:141243200-141254400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr3:141243200-141254400	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr3:141243200-141254400	Weak transcription	Fetal Stomach	stomach
37	chr3:141243400-141252000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr3:141243400-141252000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr3:141243400-141253000	Weak transcription	Fetal Intestine Large	intestine
40	chr3:141243400-141253800	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr3:141243400-141254000	Weak transcription	Stomach Smooth Muscle	stomach
42	chr3:141243400-141254400	Weak transcription	Fetal Muscle Trunk	muscle
43	chr3:141243400-141254400	Weak transcription	Ovary	ovary
44	chr3:141243400-141254400	Weak transcription	Rectal Mucosa Donor 29	rectum
45	chr3:141243400-141254400	Weak transcription	Thymus	Thymus
46	chr3:141243400-141299400	Weak transcription	Spleen	Spleen
47	chr3:141243600-141263600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr3:141244200-141253000	Weak transcription	GM12878-XiMat	blood
49	chr3:141244600-141254400	Weak transcription	Fetal Intestine Small	intestine
50	chr3:141244600-141254600	Weak transcription	Fetal Muscle Leg	muscle

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