Variant report

Variant	rs6465108
Chromosome Location	chr7:86983750-86983751
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:86978537..86980219-chr7:86982225..86984004,2	MCF-7	breast:
2	chr7:86974198..86977840-chr7:86982606..86986457,4	MCF-7	breast:
3	chr7:86977478..86981307-chr7:86983629..86987308,5	K562	blood:
4	chr7:86980008..86983941-chr7:87041444..87044239,5	MCF-7	breast:
5	chr7:86981093..86983879-chr7:87038872..87041059,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000182165	Chromatin interaction
ENSG00000005469	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs6465109	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6465110	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6950721	1.00[AMR][1000 genomes]
rs6956320	1.00[AMR][1000 genomes]
rs6956792	1.00[AMR][1000 genomes]
rs6962588	1.00[AMR][1000 genomes]
rs6963747	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6963910	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6968506	1.00[AMR][1000 genomes]
rs6971676	1.00[AMR][1000 genomes]
rs7784627	0.95[AFR][1000 genomes]
rs7792684	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7792928	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7793183	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7800840	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7801376	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7801409	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7801437	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7807956	1.00[AMR][1000 genomes]
rs7811366	0.83[YRI][hapmap];1.00[AMR][1000 genomes]
rs7811546	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025277	chr7:86299224-87206007	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv538999	chr7:86299224-87206007	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats 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	90 gene(s)	inside rSNPs	diseases
3	nsv532147	chr7:86299225-87121975	Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
4	nsv888677	chr7:86802025-87781111	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
5	nsv464622	chr7:86832603-87541248	Weak transcription Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
6	nsv607725	chr7:86832603-87541248	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
7	nsv1029486	chr7:86856387-87121976	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
8	nsv539004	chr7:86856387-87121976	Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
9	esv1814401	chr7:86857553-87034167	Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Enhancers Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
10	esv1826474	chr7:86857553-87034167	Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
11	nsv428177	chr7:86857553-87034167	Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
12	esv1828294	chr7:86857553-87147397	Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
13	nsv1024376	chr7:86905796-87129346	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
14	nsv1026153	chr7:86905796-87258822	Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
15	nsv888678	chr7:86932085-87101407	Active TSS Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:86975600-87025800	Weak transcription	Gastric	stomach
2	chr7:86975600-87029800	Weak transcription	Psoas Muscle	Psoas
3	chr7:86975800-87031000	Weak transcription	Pancreas	Pancrea
4	chr7:86976200-86990000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr7:86976800-87016000	Weak transcription	Aorta	Aorta
6	chr7:86977000-86984400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr7:86977000-86989400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr7:86977800-86987400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr7:86977800-86989200	Strong transcription	Liver	Liver
10	chr7:86978000-86983800	Strong transcription	Primary T cells fromperipheralblood	blood
11	chr7:86978600-86987600	Strong transcription	Rectal Mucosa Donor 29	rectum
12	chr7:86978800-86985400	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
13	chr7:86979000-86985200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr7:86979400-86987600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr7:86979400-87024600	Weak transcription	Small Intestine	intestine
16	chr7:86979600-86985200	Strong transcription	Osteobl	bone
17	chr7:86979800-86987400	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
18	chr7:86980000-86986400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr7:86980000-87085600	Weak transcription	Right Ventricle	heart
20	chr7:86980200-86984400	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr7:86980200-86986400	Weak transcription	Brain Hippocampus Middle	brain
22	chr7:86980200-86986400	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr7:86980200-86997800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr7:86980200-87011800	Weak transcription	Colon Smooth Muscle	Colon
25	chr7:86980200-87020400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr7:86980200-87028600	Weak transcription	Brain Cingulate Gyrus	brain
27	chr7:86981000-86983800	Strong transcription	Rectal Smooth Muscle	rectum
28	chr7:86981000-86985600	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr7:86981000-86986000	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
30	chr7:86981000-86987400	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr7:86981000-86988600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
32	chr7:86981200-86985800	ZNF genes & repeats	Dnd41	blood
33	chr7:86981400-86985200	ZNF genes & repeats	GM12878-XiMat	blood
34	chr7:86981400-86986200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr7:86981800-86984000	Strong transcription	Placenta	Placenta
36	chr7:86981800-86995800	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr7:86982200-86985200	ZNF genes & repeats	Primary B cells from cord blood	blood
38	chr7:86982200-86985200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr7:86982200-86985200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr7:86982200-86986600	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr7:86982400-86983800	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
42	chr7:86982400-86985400	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
43	chr7:86982400-86985600	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr7:86982400-87027600	Weak transcription	HSMMtube	muscle
45	chr7:86982600-86984400	Weak transcription	Placenta Amnion	Placenta Amnion
46	chr7:86982600-86984600	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
47	chr7:86982600-86984600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
48	chr7:86982600-86985200	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
49	chr7:86982600-86985200	ZNF genes & repeats	Duodenum Mucosa	Duodenum
50	chr7:86982800-86984000	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood

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