Variant report

Variant	rs12662447
Chromosome Location	chr6:33714673-33714674
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10456420	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10456421	1.00[ASN][1000 genomes]
rs10947426	0.87[AFR][1000 genomes]
rs10947432	0.81[EUR][1000 genomes]
rs12153870	0.87[AFR][1000 genomes]
rs12153877	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12189725	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12192035	0.89[EUR][1000 genomes]
rs12192087	1.00[ASN][1000 genomes]
rs12193658	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12195409	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12195707	0.87[AFR][1000 genomes]
rs12198383	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12199132	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12203688	0.84[EUR][1000 genomes]
rs12204620	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12204992	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12205398	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs12205667	0.87[AFR][1000 genomes]
rs12211490	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs12211554	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs12211565	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs12215329	0.84[EUR][1000 genomes]
rs12660955	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12661400	0.84[EUR][1000 genomes]
rs13200063	0.87[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs13204162	0.84[EUR][1000 genomes]
rs13206228	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs13207666	1.00[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs13213889	0.85[EUR][1000 genomes]
rs13214874	0.83[EUR][1000 genomes]
rs13220421	0.87[AFR][1000 genomes]
rs2274459	0.85[EUR][1000 genomes]
rs2281831	0.84[EUR][1000 genomes]
rs2296749	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs34139049	0.93[EUR][1000 genomes]
rs34339105	0.87[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs34460651	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34472165	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs34517899	0.87[AFR][1000 genomes]
rs34778247	1.00[ASN][1000 genomes]
rs34869648	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs34884883	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs35088242	0.87[AFR][1000 genomes]
rs35095444	0.91[ASN][1000 genomes]
rs35274562	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs35366046	0.81[EUR][1000 genomes]
rs35445446	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35646598	0.93[EUR][1000 genomes]
rs35698850	0.84[EUR][1000 genomes]
rs35721478	0.87[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs35797388	0.87[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs35964955	0.92[ASN][1000 genomes]
rs36097803	0.87[AFR][1000 genomes]
rs36122085	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs3793080	0.83[EUR][1000 genomes]
rs3806107	0.83[EUR][1000 genomes]
rs3818532	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66617522	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66670017	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs68168863	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6925337	0.82[EUR][1000 genomes]
rs72880510	0.91[ASN][1000 genomes]
rs729376	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs751095	0.85[EUR][1000 genomes]
rs755239	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs877187	0.89[AFR][1000 genomes];1.00[EUR][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	nsv885772	chr6:33638180-33767727	Bivalent Enhancer Genic enhancers Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33706600-33715800	Enhancers	Fetal Intestine Large	intestine
2	chr6:33710600-33715200	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr6:33710800-33716600	Active TSS	Psoas Muscle	Psoas
4	chr6:33711200-33715600	Enhancers	Fetal Intestine Small	intestine
5	chr6:33711800-33715000	Active TSS	Left Ventricle	heart
6	chr6:33711800-33715200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr6:33711800-33715600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr6:33711800-33715800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr6:33712000-33715000	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr6:33712000-33715400	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
11	chr6:33712000-33717000	Enhancers	H1 Cell Line	embryonic stem cell
12	chr6:33712000-33717800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr6:33712200-33714800	Enhancers	Fetal Stomach	stomach
14	chr6:33712200-33714800	Active TSS	Right Atrium	heart
15	chr6:33712200-33715200	Enhancers	NHLF	lung
16	chr6:33712400-33714800	Active TSS	Right Ventricle	heart
17	chr6:33712400-33714800	Enhancers	A549	lung
18	chr6:33712400-33715000	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr6:33712400-33715000	Active TSS	Brain Hippocampus Middle	brain
20	chr6:33712400-33715000	Active TSS	Brain Substantia Nigra	brain
21	chr6:33712400-33715600	Enhancers	Duodenum Mucosa	Duodenum
22	chr6:33712400-33719600	Weak transcription	Gastric	stomach
23	chr6:33712600-33714800	Active TSS	HSMM	muscle
24	chr6:33712600-33714800	Active TSS	HSMMtube	muscle
25	chr6:33712600-33715000	Active TSS	Brain Angular Gyrus	brain
26	chr6:33712800-33714800	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr6:33712800-33715000	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr6:33712800-33715000	Flanking Active TSS	Fetal Muscle Leg	muscle
29	chr6:33712800-33715200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr6:33712800-33715200	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
31	chr6:33712800-33715600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
32	chr6:33713000-33714800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr6:33713000-33715000	Enhancers	HMEC	breast
34	chr6:33713200-33715200	Enhancers	iPS-15b Cell Line	embryonic stem cell
35	chr6:33713200-33715200	Enhancers	Fetal Heart	heart
36	chr6:33713400-33715000	Active TSS	Brain Anterior Caudate	brain
37	chr6:33713400-33715000	Active TSS	Brain Cingulate Gyrus	brain
38	chr6:33713400-33715000	Active TSS	Brain Inferior Temporal Lobe	brain
39	chr6:33713400-33715000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
40	chr6:33713600-33714800	Flanking Active TSS	Liver	Liver
41	chr6:33713800-33714800	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
42	chr6:33713800-33714800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr6:33713800-33714800	Weak transcription	Fetal Kidney	kidney
44	chr6:33713800-33714800	Flanking Active TSS	Placenta	Placenta
45	chr6:33713800-33714800	Active TSS	Rectal Mucosa Donor 29	rectum
46	chr6:33713800-33714800	Active TSS	Skeletal Muscle Male	skeletal muscle
47	chr6:33713800-33714800	Enhancers	NHDF-Ad	bronchial
48	chr6:33713800-33715000	Flanking Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr6:33713800-33715200	Flanking Active TSS	Fetal Lung	lung
50	chr6:33714000-33714800	Flanking Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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