Variant report

Variant	rs709065
Chromosome Location	chr7:149427409-149427410
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:149425054..149427794-chr7:149470002..149471582,2	MCF-7	breast:
2	chr7:149415554..149419677-chr7:149423548..149428331,6	K562	blood:
3	chr7:149359410..149360268-chr7:149427258..149428099,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF862-3	chr7:149427130-149427431	NONHSAT124041

Variant related genes	Relation type
ENSG00000181444	Chromatin interaction
ENSG00000133619	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs6965332	1.00[GIH][hapmap]
rs855746	0.85[CEU][hapmap]
rs855756	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[GIH][hapmap];0.93[TSI][hapmap]

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	nsv1034350	chr7:149264094-149666356	Weak transcription ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Flanking Active TSS 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	39 gene(s)	inside rSNPs	diseases
2	nsv539190	chr7:149264094-149666356	Flanking Active TSS Genic enhancers Weak transcription Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription 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	39 gene(s)	inside rSNPs	diseases
3	nsv1023901	chr7:149364044-149747442	Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
4	nsv539191	chr7:149364044-149747442	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats 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	40 gene(s)	inside rSNPs	diseases
5	nsv469576	chr7:149379626-149563233	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
6	nsv1031581	chr7:149386249-149570178	Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription 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	31 gene(s)	inside rSNPs	diseases
7	nsv539192	chr7:149386249-149570178	Genic enhancers Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
8	nsv465199	chr7:149398065-149462621	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv608979	chr7:149398065-149462621	Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Enhancers Bivalent/Poised TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	nsv831184	chr7:149424835-149600093	Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:149412800-149438800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr7:149413000-149433200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr7:149413200-149432000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr7:149413200-149433600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr7:149413400-149433400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr7:149414000-149430200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr7:149414800-149438800	Weak transcription	Fetal Brain Male	brain
8	chr7:149416000-149431200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr7:149416000-149431400	Strong transcription	Ovary	ovary
10	chr7:149416000-149431600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr7:149416000-149431800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr7:149416000-149432000	Strong transcription	Fetal Intestine Small	intestine
13	chr7:149416000-149432400	Strong transcription	Primary T cells from cord blood	blood
14	chr7:149416000-149432800	Strong transcription	Fetal Brain Female	brain
15	chr7:149416200-149431000	Strong transcription	Primary T helper cells fromperipheralblood	blood
16	chr7:149416400-149432200	Strong transcription	Brain Germinal Matrix	brain
17	chr7:149416600-149430400	Strong transcription	Spleen	Spleen
18	chr7:149416600-149431400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr7:149416600-149431600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr7:149416800-149431000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr7:149416800-149431400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr7:149416800-149431800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr7:149417000-149430200	Strong transcription	H9 Cell Line	embryonic stem cell
24	chr7:149417400-149431400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr7:149417400-149431400	Strong transcription	Thymus	Thymus
26	chr7:149417600-149432000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr7:149417600-149432800	Strong transcription	Fetal Stomach	stomach
28	chr7:149417600-149438800	Weak transcription	GM12878-XiMat	blood
29	chr7:149417800-149430800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr7:149417800-149431600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr7:149418000-149429000	Weak transcription	NHDF-Ad	bronchial
32	chr7:149418000-149430400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr7:149418000-149430400	Strong transcription	Lung	lung
34	chr7:149418000-149430800	Strong transcription	Aorta	Aorta
35	chr7:149418000-149431000	Strong transcription	H1 Cell Line	embryonic stem cell
36	chr7:149418000-149431000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr7:149418000-149431200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr7:149418000-149431600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr7:149418000-149431600	Strong transcription	Primary T cells fromperipheralblood	blood
40	chr7:149418000-149431600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr7:149418000-149431800	Strong transcription	Cortex derived primary cultured neurospheres	brain
42	chr7:149418000-149438800	Weak transcription	A549	lung
43	chr7:149418200-149428800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
44	chr7:149418200-149429000	Strong transcription	HUES64 Cell Line	embryonic stem cell
45	chr7:149418200-149431200	Weak transcription	Stomach Mucosa	stomach
46	chr7:149418400-149428600	Strong transcription	Pancreas	Pancrea
47	chr7:149418400-149432400	Strong transcription	Brain Anterior Caudate	brain
48	chr7:149418400-149432400	Strong transcription	Brain Inferior Temporal Lobe	brain
49	chr7:149418600-149428800	Strong transcription	Left Ventricle	heart
50	chr7:149419400-149431600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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