Variant report

Variant	rs724061
Chromosome Location	chr6:140291837-140291838
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:140287622..140289430-chr6:140290980..140292727,2	K562	blood:
2	chr6:140289417..140292711-chr6:140293441..140296166,4	K562	blood:
3	chr6:140283795..140286173-chr6:140291088..140293837,2	MCF-7	breast:
4	chr6:140291815..140294274-chr6:140303049..140305531,2	K562	blood:
5	chr6:140285910..140289430-chr6:140290980..140294749,5	K562	blood:
6	chr6:140281089..140284069-chr6:140290932..140294292,3	K562	blood:
7	chr6:139693951..139695871-chr6:140291667..140293357,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164442	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1028469	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs10434888	0.95[CEU][hapmap]
rs10872525	0.90[CEU][hapmap]
rs12175776	0.82[EUR][1000 genomes]
rs12525047	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12526885	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12663217	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12663483	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12665399	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13191189	0.82[CEU][hapmap]
rs13194747	0.87[EUR][1000 genomes]
rs13194827	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13204837	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1416289	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17069768	0.90[CEU][hapmap]
rs1933742	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1953788	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1953789	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs586246	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs587235	0.90[CHB][hapmap];0.82[JPT][hapmap];0.96[ASN][1000 genomes]
rs592056	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs598498	0.85[CHB][hapmap];0.81[JPT][hapmap];0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs616279	0.90[CHB][hapmap];0.82[JPT][hapmap];0.95[ASN][1000 genomes]
rs618515	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs622216	0.96[ASN][1000 genomes]
rs62429515	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62429516	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62429517	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs647968	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs648510	0.83[CHB][hapmap];0.87[JPT][hapmap]
rs650774	0.84[CHB][hapmap];0.87[JPT][hapmap]
rs67013338	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs679849	0.86[CHB][hapmap];0.82[JPT][hapmap];0.96[ASN][1000 genomes]
rs680290	0.85[CHB][hapmap];0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs681235	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6926807	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6928433	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7743656	0.88[ASN][1000 genomes]
rs7758187	0.90[CEU][hapmap]
rs856646	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9373255	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9373256	0.90[CEU][hapmap]
rs9373259	0.95[CEU][hapmap]
rs9376482	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9376485	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9376494	0.90[CEU][hapmap]
rs9385888	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9385895	0.90[CEU][hapmap]
rs9385902	0.90[CEU][hapmap]
rs9389733	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9389741	0.90[CEU][hapmap]
rs9399298	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9399299	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9399304	0.85[CEU][hapmap]
rs9399308	0.94[CEU][hapmap]
rs9403134	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403135	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9403148	0.90[CEU][hapmap]
rs9495636	0.90[YRI][hapmap]
rs9495641	0.90[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv1017015	chr6:140084137-140300565	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1019407	chr6:140087307-140304334	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1016532	chr6:140174639-141029988	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140284400-140292200	Weak transcription	Placenta	Placenta
2	chr6:140287000-140292600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:140287800-140299000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr6:140289200-140292400	Weak transcription	HSMM	muscle
5	chr6:140289200-140294400	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr6:140289400-140294800	Weak transcription	HUVEC	blood vessel
7	chr6:140289600-140297200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr6:140291000-140294800	Weak transcription	K562	blood
9	chr6:140291400-140292000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr6:140291400-140292200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr6:140291400-140292400	Enhancers	Muscle Satellite Cultured Cells	--
12	chr6:140291400-140292400	Enhancers	NHEK	skin
13	chr6:140291600-140292000	Weak transcription	NH-A	brain
14	chr6:140291600-140292200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr6:140291600-140292400	Enhancers	Osteobl	bone
16	chr6:140291600-140292600	Enhancers	NHDF-Ad	bronchial
17	chr6:140291600-140302000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr6:140291800-140292200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr6:140291800-140292200	Enhancers	HMEC	breast

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