Variant report

Variant	rs3131046
Chromosome Location	chr6:30758861-30758862
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:18)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:18 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:30756093..30758891-chr6:30852880..30855209,2	MCF-7	breast:
2	chr6:30758839..30761709-chr6:30762940..30765835,2	MCF-7	breast:
3	chr6:30757568..30759864-chr6:30782020..30783949,2	K562	blood:
4	chr6:30719035..30719781-chr6:30758483..30759107,2	MCF-7	breast:
5	chr6:30719044..30719988-chr6:30758381..30759373,30	MCF-7	breast:
6	chr6:30717006..30717795-chr6:30758490..30759003,2	MCF-7	breast:
7	chr6:30718992..30720238-chr6:30758380..30759436,11	MCF-7	breast:
8	chr6:30719058..30719988-chr6:30758381..30759373,17	MCF-7	breast:
9	chr6:30716934..30717878-chr6:30758478..30759255,4	MCF-7	breast:
10	chr6:30705811..30713504-chr6:30753060..30768565,33	MCF-7	breast:
11	chr6:30754150..30756442-chr6:30758530..30761272,2	K562	blood:
12	chr6:30757280..30759870-chr6:30760366..30765437,6	K562	blood:
13	chr6:30758458..30759244-chr6:30773017..30773553,2	MCF-7	breast:
14	chr6:30750359..30753448-chr6:30757734..30761171,4	MCF-7	breast:
15	chr6:30708422..30712193-chr6:30756901..30760196,5	K562	blood:
16	chr6:30750458..30752219-chr6:30756523..30759247,2	MCF-7	breast:
17	chr6:30700251..30701939-chr6:30758549..30760829,2	MCF-7	breast:
18	chr6:30748167..30749896-chr6:30757094..30759690,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000204580	Chromatin interaction
ENSG00000137312	Chromatin interaction
ENSG00000272273	Chromatin interaction
ENSG00000228022	Chromatin interaction
ENSG00000137331	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10947091	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs10947095	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11758688	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs12526481	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12527415	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs12527745	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs13196596	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs13197105	0.88[ASN][1000 genomes]
rs13197117	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs13197227	0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs13201769	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs13201901	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs13206009	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs13207758	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs13210146	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs13211218	0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs13213720	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs16897899	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs16897900	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs28780116	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs28780119	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs28894083	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs28894084	0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs28894085	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs28894089	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3131042	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3131043	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3131051	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4711228	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4711229	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4713360	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4713362	0.84[ASN][1000 genomes]
rs4713365	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4713366	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4713367	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4713368	0.83[ASN][1000 genomes]
rs6900029	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs6920124	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7740474	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7740525	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9295912	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9295914	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9461630	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9461631	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9468830	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9468832	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3519970	chr6:30382942-31378788	Genic enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1030 gene(s)	inside rSNPs	diseases
2	esv3519971	chr6:30382942-31378788	Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1030 gene(s)	inside rSNPs	diseases
3	nsv601481	chr6:30422632-31284253	Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1012 gene(s)	inside rSNPs	diseases
4	esv3430377	chr6:30443802-30814426	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	967 gene(s)	inside rSNPs	diseases
5	esv2758041	chr6:30644693-30816319	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	223 gene(s)	inside rSNPs	diseases
6	esv2759413	chr6:30644693-30816319	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	223 gene(s)	inside rSNPs	diseases
7	nsv1015372	chr6:30704734-31582152	Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	334 gene(s)	inside rSNPs	diseases
8	nsv538173	chr6:30704734-31582152	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	334 gene(s)	inside rSNPs	diseases
9	nsv527226	chr6:30716719-30772378	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
10	nsv1023695	chr6:30754540-30773349	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30749400-30761200	Weak transcription	Lung	lung
2	chr6:30750400-30761200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr6:30750800-30761200	Weak transcription	Small Intestine	intestine
4	chr6:30750800-30761600	Weak transcription	NHDF-Ad	bronchial
5	chr6:30751000-30769800	Weak transcription	Right Ventricle	heart
6	chr6:30754600-30761400	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr6:30755800-30762600	Enhancers	Fetal Thymus	thymus
8	chr6:30756200-30760600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr6:30756200-30761400	Weak transcription	Fetal Stomach	stomach
10	chr6:30756200-30761400	Weak transcription	NH-A	brain
11	chr6:30756400-30760400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr6:30756400-30761400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr6:30756400-30761600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr6:30756400-30761600	Weak transcription	A549	lung
15	chr6:30756600-30759800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr6:30756600-30761000	Weak transcription	Primary B cells from cord blood	blood
17	chr6:30756600-30761200	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr6:30756800-30760000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr6:30756800-30761400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr6:30756800-30761400	Weak transcription	Osteobl	bone
21	chr6:30756800-30761800	Weak transcription	Duodenum Mucosa	Duodenum
22	chr6:30757000-30760600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
23	chr6:30757000-30761400	Enhancers	Primary neutrophils fromperipheralblood	blood
24	chr6:30757000-30763400	Weak transcription	NHEK	skin
25	chr6:30757200-30759600	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr6:30757200-30760600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
27	chr6:30757200-30761600	Weak transcription	Adipose Nuclei	Adipose
28	chr6:30757400-30761400	Weak transcription	Placenta	Placenta
29	chr6:30757400-30763600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr6:30757600-30762800	Enhancers	HepG2	liver
31	chr6:30757600-30763600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr6:30757600-30768400	Weak transcription	Hela-S3	cervix
33	chr6:30757800-30759800	Enhancers	Stomach Mucosa	stomach
34	chr6:30757800-30760800	Weak transcription	Fetal Muscle Leg	muscle
35	chr6:30758000-30760600	Weak transcription	Primary monocytes fromperipheralblood	blood
36	chr6:30758000-30760600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr6:30758000-30760600	Weak transcription	Dnd41	blood
38	chr6:30758000-30761400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
39	chr6:30758000-30765600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr6:30758200-30761400	Enhancers	Primary T helper cells PMA-I stimulated	--
41	chr6:30758400-30759000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
42	chr6:30758400-30759000	Enhancers	K562	blood
43	chr6:30758400-30761000	Weak transcription	Fetal Muscle Trunk	muscle
44	chr6:30758400-30761400	Enhancers	Primary T cells from cord blood	blood
45	chr6:30758400-30764200	Enhancers	Primary T helper cells fromperipheralblood	blood
46	chr6:30758600-30759000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
47	chr6:30758600-30760600	Weak transcription	Monocytes-CD14+_RO01746	blood
48	chr6:30758600-30761400	Enhancers	Primary T cells fromperipheralblood	blood
49	chr6:30758800-30759200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr6:30758800-30759800	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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