Variant report

Variant	rs6082842
Chromosome Location	chr20:22778122-22778123
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:22710759..22713197-chr20:22776694..22778472,2	MCF-7	breast:
2	chr20:22774202..22776469-chr20:22777682..22779522,2	MCF-7	breast:
3	chr20:22776919..22778852-chr20:22779074..22780596,2	MCF-7	breast:

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10735149	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11087397	0.90[ASN][1000 genomes]
rs11697574	0.94[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11699126	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11699192	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11906177	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11906209	0.84[EUR][1000 genomes]
rs11906222	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11906944	0.85[ASN][1000 genomes]
rs13042234	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13043348	0.86[EUR][1000 genomes]
rs16984461	0.85[ASN][1000 genomes]
rs17681000	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17681083	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2103766	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2143903	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2143904	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2179857	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2179858	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2207169	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2404492	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34023416	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35049078	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35465115	0.87[EUR][1000 genomes]
rs4414746	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs55650525	0.85[ASN][1000 genomes]
rs6075949	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6075950	0.87[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6075951	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6075953	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6075954	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6075955	0.85[ASN][1000 genomes]
rs6075956	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6075962	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6075964	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6075965	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6075966	0.92[ASN][1000 genomes]
rs6082813	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6082815	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6082816	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6082817	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6082818	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6082819	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6082822	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6082825	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6082827	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6082828	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6082829	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6082830	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6082832	0.84[EUR][1000 genomes]
rs6082833	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6082836	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6082837	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6082838	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6082839	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6082840	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6082841	0.90[ASN][1000 genomes]
rs7274509	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7274843	0.88[CEU][hapmap];0.88[CHB][hapmap];0.89[JPT][hapmap];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7353078	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73900571	0.81[ASN][1000 genomes]
rs8116991	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8119685	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8122403	0.87[CEU][hapmap];0.86[CHB][hapmap];0.89[JPT][hapmap];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs8122474	0.88[CEU][hapmap];0.88[CHB][hapmap];0.89[JPT][hapmap];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs8123509	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs926744	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[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	nsv544213	chr20:22722740-22791150	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv912816	chr20:22757960-23062927	Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv3334	chr20:22773462-22818362	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:22772000-22778600	Enhancers	HMEC	breast
2	chr20:22774000-22778200	Enhancers	Placenta Amnion	Placenta Amnion
3	chr20:22774200-22778600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr20:22774200-22778600	Enhancers	Fetal Muscle Leg	muscle
5	chr20:22774200-22778600	Enhancers	HUVEC	blood vessel
6	chr20:22774400-22778400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr20:22774800-22778800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr20:22774800-22779000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr20:22774800-22779000	Enhancers	NHEK	skin
10	chr20:22775000-22778200	Enhancers	HSMM	muscle
11	chr20:22775200-22778200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr20:22775400-22778600	Enhancers	Spleen	Spleen
13	chr20:22776000-22778600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr20:22776400-22779800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr20:22776400-22780800	Weak transcription	Fetal Muscle Trunk	muscle
16	chr20:22776400-22785800	Weak transcription	Right Atrium	heart
17	chr20:22776600-22778200	Enhancers	NHLF	lung
18	chr20:22776600-22781400	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr20:22776600-22781400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr20:22777000-22781400	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr20:22777400-22778200	Enhancers	A549	lung
22	chr20:22777400-22778200	Enhancers	NH-A	brain
23	chr20:22777400-22778400	Weak transcription	Placenta	Placenta
24	chr20:22777400-22782400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr20:22777600-22778200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr20:22777600-22778400	Weak transcription	Gastric	stomach
27	chr20:22777600-22780000	Weak transcription	HSMMtube	muscle
28	chr20:22777600-22781000	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr20:22777600-22782800	Weak transcription	Aorta	Aorta
30	chr20:22778000-22778800	Enhancers	Lung	lung

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