Variant report

Variant	rs2342772
Chromosome Location	chr6:150219189-150219190
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:2)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	USF1	chr6:150219173-150219529	K562	blood:	n/a	n/a

No data

(count:2 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:150217021..150219534-chr6:150242538..150245487,2	MCF-7	breast:
2	chr6:150183832..150186232-chr6:150215270..150224001,9	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RAET1G-1	chr6:150219157-150219213	NONHSAT115520

No data

Variant related genes	Relation type
RAET1E	TF binding region
ENSG00000268592	Chromatin interaction
ENSG00000203722	Chromatin interaction
ENSG00000120256	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs56128014	1.00[AMR][1000 genomes]
rs58372149	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6933639	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73782115	1.00[AMR][1000 genomes]
rs73782119	1.00[AMR][1000 genomes]
rs73782126	1.00[AMR][1000 genomes]
rs73782130	1.00[AMR][1000 genomes]
rs73782134	1.00[AMR][1000 genomes]
rs7766987	0.91[MKK][hapmap];0.89[YRI][hapmap];1.00[AMR][1000 genomes]

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	nsv886764	chr6:150114745-150393683	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv517022	chr6:150145001-150426272	Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv886765	chr6:150198491-150288722	Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	esv1817805	chr6:150209592-150268708	Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150209600-150222200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:150215800-150219200	Enhancers	Stomach Mucosa	stomach
3	chr6:150216000-150219200	Enhancers	Left Ventricle	heart
4	chr6:150216000-150219400	Enhancers	Lung	lung
5	chr6:150216000-150219400	Enhancers	Sigmoid Colon	Sigmoid Colon
6	chr6:150216000-150219400	Flanking Active TSS	Hela-S3	cervix
7	chr6:150216000-150222600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr6:150216200-150219400	Enhancers	Fetal Intestine Large	intestine
9	chr6:150216200-150219400	Enhancers	Fetal Muscle Trunk	muscle
10	chr6:150216200-150219600	Enhancers	Fetal Muscle Leg	muscle
11	chr6:150216600-150219200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr6:150216600-150221800	Weak transcription	Pancreas	Pancrea
13	chr6:150216600-150225000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr6:150217800-150219200	Flanking Active TSS	Stomach Smooth Muscle	stomach
15	chr6:150217800-150221600	Weak transcription	Gastric	stomach
16	chr6:150218600-150219200	Enhancers	Spleen	Spleen
17	chr6:150218600-150219600	Enhancers	NHDF-Ad	bronchial
18	chr6:150218600-150221600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr6:150218600-150222600	Enhancers	HMEC	breast
20	chr6:150218800-150219200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr6:150218800-150219200	Enhancers	Brain Hippocampus Middle	brain
22	chr6:150218800-150219200	Enhancers	Brain Inferior Temporal Lobe	brain
23	chr6:150218800-150219200	Flanking Active TSS	Esophagus	oesophagus
24	chr6:150218800-150219200	Enhancers	Ovary	ovary
25	chr6:150218800-150219400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr6:150218800-150219400	Enhancers	Breast Myoepithelial Primary Cells	Breast
27	chr6:150218800-150219400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr6:150218800-150219400	Enhancers	Brain Anterior Caudate	brain
29	chr6:150218800-150221400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr6:150218800-150227600	Weak transcription	Fetal Intestine Small	intestine
31	chr6:150219000-150219200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr6:150219000-150219200	Enhancers	Duodenum Mucosa	Duodenum
33	chr6:150219000-150219200	Enhancers	Psoas Muscle	Psoas
34	chr6:150219000-150219200	Enhancers	Rectal Smooth Muscle	rectum
35	chr6:150219000-150219200	Flanking Active TSS	HSMMtube	muscle
36	chr6:150219000-150219400	Enhancers	Muscle Satellite Cultured Cells	--
37	chr6:150219000-150219400	Enhancers	Colonic Mucosa	Colon
38	chr6:150219000-150219400	Enhancers	HSMM	muscle
39	chr6:150219000-150219400	Enhancers	Osteobl	bone
40	chr6:150219000-150219600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr6:150219000-150219600	Enhancers	Skeletal Muscle Male	skeletal muscle
42	chr6:150219000-150219600	Enhancers	NHLF	lung
43	chr6:150219000-150219800	Enhancers	Adipose Nuclei	Adipose
44	chr6:150219000-150219800	Enhancers	Rectal Mucosa Donor 31	rectum
45	chr6:150219000-150219800	Bivalent Enhancer	HepG2	liver
46	chr6:150219000-150220000	Enhancers	A549	lung
47	chr6:150219000-150220200	Enhancers	Skeletal Muscle Female	skeletal muscle
48	chr6:150219000-150221200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr6:150219000-150221400	Enhancers	NHEK	skin
50	chr6:150219000-150225800	Weak transcription	Right Atrium	heart

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