Variant report

Variant	rs3800403
Chromosome Location	chr6:35138250-35138251
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	chr6:35127079..35138793-chr6:35145525..35157743,32	MCF-7	breast:
2	chr6:35136063..35139125-chr6:35139498..35141793,3	K562	blood:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs12189669	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1408255	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1888822	0.81[YRI][hapmap]
rs1888825	0.81[YRI][hapmap]
rs1987673	0.81[YRI][hapmap]
rs2005	0.82[JPT][hapmap]
rs2071920	0.81[YRI][hapmap]
rs2267657	0.81[YRI][hapmap]
rs3800385	0.81[YRI][hapmap]
rs3800404	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3800405	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4711405	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4711407	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4711411	0.81[YRI][hapmap]
rs6457801	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6457802	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6457804	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6457806	0.94[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6911268	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6914081	1.00[CHB][hapmap];0.94[JPT][hapmap];0.92[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6920194	0.83[ASN][1000 genomes]
rs6925406	0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6931790	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6939132	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7772251	0.83[JPT][hapmap]
rs914547	0.81[YRI][hapmap]
rs9366881	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9366882	0.87[YRI][hapmap]
rs9380494	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9380495	0.95[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9394277	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9394287	0.93[CEU][hapmap]
rs942373	0.88[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap];0.83[EUR][1000 genomes]
rs942374	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs942375	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9469972	0.81[YRI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3340708	chr6:35135274-35139572	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35130600-35141400	Weak transcription	Brain Substantia Nigra	brain
2	chr6:35134400-35140400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:35135000-35148800	Weak transcription	Esophagus	oesophagus
4	chr6:35135600-35138600	Weak transcription	Stomach Mucosa	stomach
5	chr6:35136600-35139400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr6:35136600-35139600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr6:35137000-35141600	Weak transcription	Fetal Heart	heart
8	chr6:35137000-35141600	Weak transcription	Left Ventricle	heart
9	chr6:35137000-35148800	Weak transcription	Right Atrium	heart
10	chr6:35137200-35139600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr6:35137400-35139200	Enhancers	NH-A	brain
12	chr6:35137400-35139600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr6:35137400-35139600	Enhancers	NHDF-Ad	bronchial
14	chr6:35137400-35139800	Enhancers	Muscle Satellite Cultured Cells	--
15	chr6:35137400-35142200	Enhancers	Osteobl	bone
16	chr6:35137600-35139000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr6:35137600-35139000	Enhancers	NHLF	lung
18	chr6:35137600-35140800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr6:35137600-35141200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr6:35137600-35141600	Weak transcription	Brain Angular Gyrus	brain
21	chr6:35137600-35145200	Weak transcription	Fetal Kidney	kidney
22	chr6:35137800-35138400	Enhancers	HSMM	muscle
23	chr6:35137800-35139000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr6:35137800-35141000	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr6:35138000-35139600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr6:35138000-35142400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr6:35138200-35138800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin

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