Variant report

Variant	rs6904173
Chromosome Location	chr6:107349821-107349822
allele	C/T
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:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:107348651..107350982-chr6:107436462..107438379,2	MCF-7	breast:
2	chr17:49021425..49022396-chr6:107349123..107349985,2	Hela-S3	cervix:
3	chr6:107349446..107350106-chrX:55744114..55744644,2	Hela-S3	cervix:
4	chr6:107349497..107351079-chr6:107352927..107355147,2	K562	blood:
5	chr19:48593283..48595483-chr6:107349367..107351311,2	MCF-7	breast:
6	chr6:107348282..107349929-chr6:107434482..107436026,2	MCF-7	breast:
7	chr6:107349611..107351670-chr6:107427868..107430098,2	K562	blood:
8	chr6:107347834..107352199-chr6:107435156..107438068,7	K562	blood:
9	chr6:107348946..107349883-chr6:107435442..107435977,2	MCF-7	breast:
10	chr6:107349353..107351618-chr6:107359338..107361220,3	K562	blood:
11	chr19:17354697..17355609-chr6:107349481..107350007,2	Hela-S3	cervix:
12	chr6:107347936..107352040-chr6:107433516..107438644,8	MCF-7	breast:
13	chr6:107347965..107351163-chr6:107434365..107438960,10	K562	blood:

No data

Variant related genes	Relation type
ENSG00000105499	Chromatin interaction
ENSG00000130349	Chromatin interaction
ENSG00000083750	Chromatin interaction
ENSG00000247011	Chromatin interaction
ENSG00000178409	Chromatin interaction
ENSG00000160113	Chromatin interaction
ENSG00000251665	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10046417	1.00[AMR][1000 genomes]
rs12333272	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6568459	1.00[AMR][1000 genomes]
rs6937626	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6942371	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73519734	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73519759	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9486492	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9486501	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9486509	1.00[AMR][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	nsv1019898	chr6:107310094-107554445	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1020715	chr6:107313502-107527077	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised 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 miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv1025321	chr6:107313502-107555957	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:107348800-107350400	Active TSS	ES-I3 Cell Line	embryonic stem cell
2	chr6:107348800-107350400	Active TSS	Colonic Mucosa	Colon
3	chr6:107349000-107350000	Active TSS	Cortex derived primary cultured neurospheres	brain
4	chr6:107349000-107350000	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr6:107349000-107350000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr6:107349000-107350000	Active TSS	Liver	Liver
7	chr6:107349000-107350000	Active TSS	Brain Cingulate Gyrus	brain
8	chr6:107349000-107350000	Active TSS	Brain Inferior Temporal Lobe	brain
9	chr6:107349000-107350000	Active TSS	Skeletal Muscle Male	skeletal muscle
10	chr6:107349000-107350200	Active TSS	Brain Hippocampus Middle	brain
11	chr6:107349000-107350200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
12	chr6:107349000-107350200	Active TSS	Brain Substantia Nigra	brain
13	chr6:107349000-107350200	Active TSS	Colon Smooth Muscle	Colon
14	chr6:107349000-107350200	Active TSS	Fetal Adrenal Gland	Adrenal Gland
15	chr6:107349000-107350400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr6:107349000-107350400	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr6:107349000-107350400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr6:107349000-107350400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr6:107349000-107350400	Active TSS	Breast Myoepithelial Primary Cells	Breast
20	chr6:107349000-107350400	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr6:107349000-107350400	Active TSS	Brain Anterior Caudate	brain
22	chr6:107349000-107350400	Active TSS	Fetal Intestine Large	intestine
23	chr6:107349000-107350400	Active TSS	Fetal Kidney	kidney
24	chr6:107349000-107350400	Active TSS	Placenta	Placenta
25	chr6:107349000-107350400	Active TSS	Stomach Smooth Muscle	stomach
26	chr6:107349000-107350400	Active TSS	A549	lung
27	chr6:107349000-107350400	Active TSS	GM12878-XiMat	blood
28	chr6:107349000-107350400	Active TSS	HSMM	muscle
29	chr6:107349000-107350800	Active TSS	Rectal Smooth Muscle	rectum
30	chr6:107349000-107351000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr6:107349200-107350000	Transcr. at gene 5' and 3'	Right Atrium	heart
32	chr6:107349200-107350200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
33	chr6:107349200-107350200	Active TSS	Brain Germinal Matrix	brain
34	chr6:107349200-107350200	Active TSS	Duodenum Smooth Muscle	Duodenum
35	chr6:107349200-107350200	Active TSS	NHEK	skin
36	chr6:107349200-107350400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr6:107349200-107350400	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr6:107349200-107350400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr6:107349200-107350400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr6:107349200-107350400	Active TSS	Psoas Muscle	Psoas
41	chr6:107349200-107350400	Active TSS	Right Ventricle	heart
42	chr6:107349200-107350400	Active TSS	NH-A	brain
43	chr6:107349200-107350400	Active TSS	NHLF	lung
44	chr6:107349200-107350600	Active TSS	Duodenum Mucosa	Duodenum
45	chr6:107349200-107350800	Active TSS	Muscle Satellite Cultured Cells	--
46	chr6:107349200-107350800	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr6:107349400-107350000	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr6:107349400-107350000	Transcr. at gene 5' and 3'	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr6:107349400-107350000	Active TSS	Primary B cells from peripheral blood	blood
50	chr6:107349400-107350000	Active TSS	Primary T helper memory cells from peripheral blood 2	blood

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