Variant report

Variant	rs62394163
Chromosome Location	chr6:4007372-4007373
allele	A/C
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:7)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:3997291..4000152-chr6:4006833..4008648,3	K562	blood:
2	chr6:4007350..4010336-chr6:4010836..4013423,2	K562	blood:
3	chr6:3750029..3753139-chr6:4004237..4008311,3	MCF-7	breast:
4	chr6:4006763..4009757-chr6:4011766..4014574,3	K562	blood:
5	chr6:3975533..3977804-chr6:4006723..4009090,2	MCF-7	breast:
6	chr6:4005813..4011105-chr6:4019911..4024934,5	MCF-7	breast:
7	chr6:3997364..4000152-chr6:4006833..4008648,2	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C6orf146-1	chr6:4006806-4020323	NONHSAT107264

No data

Variant related genes	Relation type
ENSG00000168994	Chromatin interaction
ENSG00000112739	Chromatin interaction
ENSG00000230648	Chromatin interaction
ENSG00000270504	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11754326	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11754413	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11759303	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12662057	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17137442	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1969836	0.92[ASN][1000 genomes]
rs1969837	0.93[ASN][1000 genomes]
rs2147374	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28889078	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6914776	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9392546	0.94[ASN][1000 genomes]
rs9405217	0.94[ASN][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	nsv532020	chr6:3417520-4140257	Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv1022968	chr6:3862744-4272502	Enhancers Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	nsv538106	chr6:3862744-4272502	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	esv1800199	chr6:3986611-4014872	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:3985400-4011000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr6:3991200-4008400	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr6:3991200-4010400	Weak transcription	K562	blood
4	chr6:3991200-4011000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:3991200-4012200	Weak transcription	Left Ventricle	heart
6	chr6:3991400-4011000	Weak transcription	Lung	lung
7	chr6:3991400-4016800	Weak transcription	Fetal Muscle Trunk	muscle
8	chr6:3991600-4008000	Weak transcription	Liver	Liver
9	chr6:3991600-4008400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr6:3991600-4008400	Weak transcription	Fetal Kidney	kidney
11	chr6:3991600-4008400	Weak transcription	HSMM	muscle
12	chr6:3991600-4017200	Weak transcription	Fetal Brain Female	brain
13	chr6:3991600-4017400	Weak transcription	Stomach Smooth Muscle	stomach
14	chr6:3991600-4017600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr6:3991800-4008000	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr6:3991800-4016600	Weak transcription	Aorta	Aorta
17	chr6:3991800-4017400	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr6:3991800-4017400	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr6:3991800-4017600	Weak transcription	Fetal Muscle Leg	muscle
20	chr6:3992600-4008400	Weak transcription	Fetal Intestine Small	intestine
21	chr6:3993200-4011000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr6:3997400-4016200	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr6:3997400-4017400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr6:3997600-4017600	Weak transcription	Psoas Muscle	Psoas
25	chr6:3997800-4010800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr6:3997800-4011000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr6:3998000-4017400	Weak transcription	NHLF	lung
28	chr6:3998200-4017400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr6:3998400-4008200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr6:3998400-4008200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr6:3998400-4008400	Weak transcription	Brain Anterior Caudate	brain
32	chr6:3998400-4008400	Weak transcription	Fetal Lung	lung
33	chr6:3998400-4008400	Weak transcription	NHDF-Ad	bronchial
34	chr6:3998400-4016200	Weak transcription	Brain Germinal Matrix	brain
35	chr6:3998400-4017600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr6:3998400-4017600	Weak transcription	Small Intestine	intestine
37	chr6:3998600-4008400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr6:3998600-4008400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
39	chr6:3998600-4008400	Weak transcription	Rectal Smooth Muscle	rectum
40	chr6:3998600-4012800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
41	chr6:3998800-4008200	Weak transcription	Osteobl	bone
42	chr6:3998800-4008400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr6:3998800-4008400	Weak transcription	NHEK	skin
44	chr6:3998800-4017400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr6:4000000-4008400	Weak transcription	Fetal Intestine Large	intestine
46	chr6:4000200-4017400	Weak transcription	HUVEC	blood vessel
47	chr6:4000600-4008400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr6:4000600-4008400	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr6:4000800-4013400	Weak transcription	Placenta	Placenta
50	chr6:4001000-4008400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood

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