Variant report

Variant	rs286798
Chromosome Location	chr5:107482605-107482606
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:107481414..107482932-chr6:26041873..26043886,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000196226	Chromatin interaction

Extended variants
information (count: 97 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:94)

rs_ID	r²[population]
rs10040007	1.00[CHB][hapmap]
rs10045002	1.00[CHB][hapmap]
rs10070927	1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10071499	1.00[CHB][hapmap]
rs158168	0.83[AMR][1000 genomes]
rs158169	0.80[AMR][1000 genomes]
rs158171	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs158174	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs158176	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs158177	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs158178	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs158180	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs158182	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs158183	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs158184	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs158185	0.95[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs158187	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs171756	1.00[CHB][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs182288	0.82[EUR][1000 genomes]
rs2076794	1.00[CHB][hapmap]
rs286740	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs286742	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286763	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs286770	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs286778	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];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs286796	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs286797	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286801	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286804	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286807	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286810	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286811	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs286812	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs286814	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs286816	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs286819	1.00[ASN][1000 genomes]
rs286820	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs288174	1.00[CHB][hapmap]
rs288176	1.00[CHB][hapmap]
rs2910791	1.00[CHB][hapmap];0.84[AMR][1000 genomes]
rs2922408	1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2922417	0.84[AMR][1000 genomes]
rs2922418	0.84[AMR][1000 genomes]
rs2922421	0.83[AMR][1000 genomes]
rs2922422	0.83[AMR][1000 genomes]
rs2922425	1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs2922431	1.00[CHB][hapmap];0.83[AMR][1000 genomes]
rs2922432	0.83[AMR][1000 genomes]
rs2941698	0.83[AMR][1000 genomes]
rs2966788	1.00[CHB][hapmap]
rs2966796	0.81[AMR][1000 genomes]
rs2966800	1.00[CHB][hapmap];0.83[AMR][1000 genomes]
rs2966802	0.81[AMR][1000 genomes]
rs2966803	1.00[CHB][hapmap];0.83[AMR][1000 genomes]
rs2966804	0.84[AMR][1000 genomes]
rs2966813	0.84[AMR][1000 genomes]
rs2966814	0.84[AMR][1000 genomes]
rs2966818	0.83[AMR][1000 genomes]
rs2966820	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs2966821	1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2966823	1.00[CHB][hapmap];0.83[AMR][1000 genomes]
rs2966825	1.00[CHB][hapmap];0.83[AMR][1000 genomes]
rs2966827	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2966828	0.84[AMR][1000 genomes]
rs2966829	1.00[CHB][hapmap];0.81[AMR][1000 genomes]
rs2966833	1.00[CHB][hapmap]
rs34386	1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34387	1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34411	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34412	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34416	0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs34417	0.84[CEU][hapmap];0.86[JPT][hapmap]
rs34418	0.84[CEU][hapmap];0.86[JPT][hapmap];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34425	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34426	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34429	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34430	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34431	0.85[AMR][1000 genomes]
rs40062	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs40063	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs40065	1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs40066	1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs40072	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs41130	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4395619	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs466018	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4957551	1.00[CHB][hapmap]
rs5005385	0.81[AMR][1000 genomes]
rs6594295	1.00[CHB][hapmap]
rs6863456	1.00[CHB][hapmap]
rs6880727	1.00[CHB][hapmap]
rs7706429	1.00[CHB][hapmap]
rs7727051	1.00[CHB][hapmap]
rs7733311	1.00[CHB][hapmap]

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	nsv534281	chr5:107357579-107674981	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv830441	chr5:107450392-107614557	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv882683	chr5:107476501-107769095	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107388400-107510800	Weak transcription	Primary B cells from cord blood	blood
2	chr5:107474600-107511000	Weak transcription	Primary T cells from cord blood	blood
3	chr5:107475200-107527400	Weak transcription	Liver	Liver
4	chr5:107475800-107510400	Weak transcription	Fetal Intestine Small	intestine
5	chr5:107476000-107535600	Weak transcription	Left Ventricle	heart
6	chr5:107477600-107486000	Weak transcription	Psoas Muscle	Psoas
7	chr5:107478800-107488400	Weak transcription	Fetal Lung	lung
8	chr5:107479400-107486000	Weak transcription	Pancreas	Pancrea
9	chr5:107480000-107484600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr5:107480000-107484600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr5:107480400-107500000	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr5:107480800-107521000	Weak transcription	Primary hematopoietic stem cells	blood
13	chr5:107481000-107496400	Weak transcription	Primary B cells from peripheral blood	blood
14	chr5:107481000-107498400	Weak transcription	Fetal Intestine Large	intestine
15	chr5:107481200-107483800	Weak transcription	Fetal Muscle Leg	muscle
16	chr5:107481200-107484800	Weak transcription	Esophagus	oesophagus
17	chr5:107481400-107484800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr5:107481600-107484000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr5:107481600-107504400	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr5:107482000-107484600	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr5:107482000-107510800	Weak transcription	Duodenum Mucosa	Duodenum
22	chr5:107482400-107483000	Strong transcription	Skeletal Muscle Male	skeletal muscle
23	chr5:107482400-107498400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr5:107482600-107484400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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