Variant report

Variant	rs6481501
Chromosome Location	chr10:28364826-28364827
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	chr10:28364402..28367665-chr10:28377622..28380231,3	MCF-7	breast:
2	chr10:28362265..28365237-chr10:28365253..28367161,2	K562	blood:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10826393	0.80[JPT][hapmap]
rs11006821	0.95[JPT][hapmap]
rs11006822	0.95[JPT][hapmap]
rs11006830	0.94[JPT][hapmap]
rs11006849	0.81[CHB][hapmap]
rs11006850	0.90[YRI][hapmap];0.92[AFR][1000 genomes]
rs11006853	0.80[CHB][hapmap]
rs11006868	0.86[YRI][hapmap];0.90[AFR][1000 genomes]
rs12253376	0.94[JPT][hapmap]
rs12414756	0.93[AFR][1000 genomes]
rs12414784	0.93[AFR][1000 genomes]
rs12415332	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17757838	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3885634	0.84[JPT][hapmap]
rs4747613	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4747614	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4749300	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs4749303	0.90[ASN][1000 genomes]
rs4749306	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6481499	0.94[JPT][hapmap]
rs7069269	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7077881	0.85[JPT][hapmap]
rs7078263	0.80[JPT][hapmap]
rs7078301	0.81[JPT][hapmap]
rs7083490	1.00[CEU][hapmap];0.90[YRI][hapmap];0.93[AFR][1000 genomes]
rs7909706	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7920296	0.81[YRI][hapmap];0.80[AFR][1000 genomes]
rs7920402	0.91[YRI][hapmap];0.93[AFR][1000 genomes]
rs7920857	0.80[JPT][hapmap]
rs7920864	0.84[JPT][hapmap]
rs9732508	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv831815	chr10:28235661-28407533	Strong transcription Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv1042524	chr10:28290149-28506812	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv831816	chr10:28304698-28493635	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
5	nsv894988	chr10:28337570-28410989	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
6	nsv525448	chr10:28337570-28563732	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
7	nsv466855	chr10:28341783-28400835	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
8	nsv550284	chr10:28341783-28400835	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS	Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28341200-28377600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr10:28346200-28375400	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr10:28347000-28375200	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr10:28347000-28380400	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr10:28347000-28381000	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr10:28347000-28412200	Weak transcription	Left Ventricle	heart
7	chr10:28347000-28414600	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr10:28347400-28374600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr10:28347400-28377000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr10:28347400-28377200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr10:28348000-28381200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr10:28348200-28365200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr10:28349400-28376600	Weak transcription	Colon Smooth Muscle	Colon
14	chr10:28356200-28366200	Weak transcription	Brain Angular Gyrus	brain
15	chr10:28357200-28380200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr10:28357800-28367200	Strong transcription	Primary T cells from cord blood	blood
17	chr10:28358000-28366000	Weak transcription	Psoas Muscle	Psoas
18	chr10:28358800-28366800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr10:28360800-28366400	Weak transcription	Rectal Smooth Muscle	rectum
20	chr10:28362400-28366400	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr10:28363600-28365400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr10:28364200-28365200	Strong transcription	Primary B cells from cord blood	blood
23	chr10:28364200-28365200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr10:28364200-28365200	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr10:28364200-28365200	ZNF genes & repeats	Fetal Intestine Large	intestine
26	chr10:28364200-28365200	Strong transcription	Skeletal Muscle Female	skeletal muscle
27	chr10:28364200-28365400	Strong transcription	Primary T cells fromperipheralblood	blood
28	chr10:28364200-28365800	ZNF genes & repeats	Fetal Intestine Small	intestine
29	chr10:28364400-28365000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr10:28364400-28365000	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
31	chr10:28364400-28365000	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
32	chr10:28364400-28365200	ZNF genes & repeats	HepG2	liver
33	chr10:28364400-28365400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr10:28364400-28366800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr10:28364400-28367400	Strong transcription	Primary T helper cells PMA-I stimulated	--
36	chr10:28364400-28368800	Strong transcription	Primary T helper cells fromperipheralblood	blood
37	chr10:28364600-28365200	ZNF genes & repeats	Duodenum Mucosa	Duodenum
38	chr10:28364600-28365400	Strong transcription	Primary monocytes fromperipheralblood	blood
39	chr10:28364600-28367000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr10:28364600-28375600	Weak transcription	Esophagus	oesophagus
41	chr10:28364600-28375600	Weak transcription	Fetal Stomach	stomach
42	chr10:28364600-28378800	Weak transcription	Fetal Muscle Leg	muscle
43	chr10:28364800-28365400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
44	chr10:28364800-28367400	Strong transcription	Primary neutrophils fromperipheralblood	blood
45	chr10:28364800-28373200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
46	chr10:28364800-28373600	Weak transcription	Stomach Smooth Muscle	stomach
47	chr10:28364800-28375400	Weak transcription	Primary hematopoietic stem cells	blood
48	chr10:28364800-28375600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr10:28364800-28375600	Weak transcription	Aorta	Aorta
50	chr10:28364800-28376800	Weak transcription	HSMM	muscle

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