Variant report

Variant	rs73407641
Chromosome Location	chr6:35167451-35167452
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:35132111..35134343-chr6:35165160..35168099,4	MCF-7	breast:
2	chr6:35160680..35162385-chr6:35165533..35168085,2	MCF-7	breast:
3	chr6:35147825..35149730-chr6:35166517..35168770,2	MCF-7	breast:
4	chr6:35146928..35151829-chr6:35162484..35168348,5	K562	blood:
5	chr6:35133862..35136127-chr6:35165678..35167880,2	MCF-7	breast:
6	chr6:35167248..35168898-chr6:35172556..35174347,2	MCF-7	breast:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SCUBE3-2	chr6:35167125-35167995	NONHSAT112164

No data

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs1034450	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10428744	1.00[ASN][1000 genomes]
rs11962521	1.00[ASN][1000 genomes]
rs11962524	1.00[ASN][1000 genomes]
rs12110520	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12110664	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12111424	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16868695	1.00[ASN][1000 genomes]
rs16868699	1.00[ASN][1000 genomes]
rs16872293	1.00[ASN][1000 genomes]
rs16874216	1.00[ASN][1000 genomes]
rs2004	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2187903	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2228265	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28627111	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2894400	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34278260	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34644591	1.00[ASN][1000 genomes]
rs35455943	0.88[EUR][1000 genomes]
rs41270046	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41270062	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45482297	1.00[ASN][1000 genomes]
rs56809926	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57229653	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57468283	1.00[ASN][1000 genomes]
rs57794912	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57976333	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58796597	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58850273	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59895076	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60086237	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60113507	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60569490	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61592141	1.00[ASN][1000 genomes]
rs61734578	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457817	1.00[ASN][1000 genomes]
rs6900879	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6901580	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6904477	1.00[ASN][1000 genomes]
rs6905732	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6911817	1.00[ASN][1000 genomes]
rs6923025	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6934083	1.00[ASN][1000 genomes]
rs6938138	1.00[ASN][1000 genomes]
rs6939017	1.00[ASN][1000 genomes]
rs73403830	1.00[ASN][1000 genomes]
rs73403834	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73403837	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73403843	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73403847	1.00[ASN][1000 genomes]
rs73403887	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73405709	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73405725	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73405759	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73405765	1.00[ASN][1000 genomes]
rs73405768	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73405774	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73405795	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73405799	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73407610	1.00[ASN][1000 genomes]
rs73407613	1.00[ASN][1000 genomes]
rs73407619	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73407650	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73407675	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73409710	1.00[ASN][1000 genomes]
rs73409758	1.00[ASN][1000 genomes]
rs73409765	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73409769	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73409774	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73409778	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73409793	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73411706	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73411720	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73411726	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73411781	0.81[EUR][1000 genomes]
rs73411797	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs743965	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7773319	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs820102	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9462062	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9462064	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469960	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469967	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9658127	1.00[ASN][1000 genomes]
rs9658131	1.00[ASN][1000 genomes]
rs9942465	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	esv3428128	chr6:35150524-35225843	Bivalent Enhancer Enhancers Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35154000-35169800	Weak transcription	Right Atrium	heart
2	chr6:35154400-35169200	Weak transcription	Fetal Heart	heart
3	chr6:35161000-35167800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr6:35161600-35167800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr6:35161600-35169400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr6:35161600-35170000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr6:35163200-35171200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr6:35163600-35171000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr6:35165200-35169400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr6:35165200-35171200	Weak transcription	NH-A	brain
11	chr6:35165400-35167800	Weak transcription	HMEC	breast
12	chr6:35165600-35168000	Enhancers	Muscle Satellite Cultured Cells	--
13	chr6:35165600-35169400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr6:35166200-35168800	Enhancers	Breast Myoepithelial Primary Cells	Breast
15	chr6:35167000-35168200	Enhancers	Brain Inferior Temporal Lobe	brain
16	chr6:35167000-35168400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr6:35167000-35168600	Enhancers	Brain Cingulate Gyrus	brain
18	chr6:35167000-35169200	Enhancers	HepG2	liver
19	chr6:35167200-35167600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr6:35167200-35167800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr6:35167200-35168200	Enhancers	Brain Hippocampus Middle	brain
22	chr6:35167200-35168400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
23	chr6:35167200-35168400	Enhancers	Brain Substantia Nigra	brain
24	chr6:35167400-35168400	Enhancers	Osteobl	bone
25	chr6:35167400-35168600	Enhancers	Brain Angular Gyrus	brain

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