Variant report

Variant	rs62434109
Chromosome Location	chr6:150975312-150975313
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs12661140	0.82[AMR][1000 genomes]
rs12663498	0.81[AMR][1000 genomes]
rs12664595	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17080057	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17080062	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17080069	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17080087	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17080089	0.80[AMR][1000 genomes]
rs17080091	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17080093	0.80[AMR][1000 genomes]
rs17080102	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs57139556	0.80[AMR][1000 genomes]
rs59155780	0.87[EUR][1000 genomes]
rs62434110	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62434111	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62434119	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62434120	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62434122	0.80[AMR][1000 genomes]
rs62434123	0.80[AMR][1000 genomes]
rs62434124	0.80[AMR][1000 genomes]
rs62434125	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62434129	0.83[AMR][1000 genomes];0.85[EUR][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	nsv886772	chr6:150743364-151024280	Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv886774	chr6:150931131-150983318	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1030326	chr6:150967665-151641372	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150959800-150987400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:150960400-150980600	Weak transcription	Stomach Mucosa	stomach
3	chr6:150961600-150980200	Weak transcription	Lung	lung
4	chr6:150963000-150979200	Weak transcription	Fetal Lung	lung
5	chr6:150964600-150977400	Weak transcription	Small Intestine	intestine
6	chr6:150964600-150979200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr6:150964600-150980000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr6:150964800-150975400	Weak transcription	Fetal Kidney	kidney
9	chr6:150964800-150987400	Weak transcription	Brain Cingulate Gyrus	brain
10	chr6:150967400-150975400	Weak transcription	Esophagus	oesophagus
11	chr6:150967800-150980200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr6:150971400-150978000	Strong transcription	Fetal Thymus	thymus
13	chr6:150971400-150979200	Weak transcription	Brain Substantia Nigra	brain
14	chr6:150971600-150985400	Strong transcription	Primary B cells from peripheral blood	blood
15	chr6:150971600-150986800	Weak transcription	Left Ventricle	heart
16	chr6:150973200-150980600	Weak transcription	Liver	Liver
17	chr6:150973400-150977200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr6:150974600-150975600	Enhancers	Ovary	ovary
19	chr6:150974600-150975800	Genic enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr6:150974600-150975800	Strong transcription	Fetal Stomach	stomach
21	chr6:150974600-150975800	Strong transcription	Thymus	Thymus
22	chr6:150974600-150977400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
23	chr6:150974600-150980200	Weak transcription	Placenta	Placenta
24	chr6:150974800-150975400	Weak transcription	Spleen	Spleen
25	chr6:150974800-150977200	Weak transcription	Fetal Intestine Small	intestine
26	chr6:150974800-150978800	Weak transcription	Right Atrium	heart
27	chr6:150974800-150980200	Weak transcription	Fetal Intestine Large	intestine
28	chr6:150974800-150982000	Weak transcription	Fetal Muscle Leg	muscle
29	chr6:150974800-150988600	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr6:150975000-150976000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr6:150975000-150980000	Strong transcription	Primary B cells from cord blood	blood
32	chr6:150975200-150975400	Strong transcription	Sigmoid Colon	Sigmoid Colon
33	chr6:150975200-150975600	Strong transcription	Fetal Muscle Trunk	muscle
34	chr6:150975200-150976000	Strong transcription	Duodenum Mucosa	Duodenum
35	chr6:150975200-150976200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
36	chr6:150975200-150977400	Weak transcription	Rectal Mucosa Donor 31	rectum

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