Variant report

Variant	rs6952649
Chromosome Location	chr7:97882880-97882881
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:97881770..97884305-chr7:97885648..97888001,2	K562	blood:
2	chr7:97880638..97884180-chr7:98029742..98031678,3	MCF-7	breast:
3	chr7:97880609..97882891-chr7:97909884..97913133,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-BRI3-2	chr7:97881470-97887682	NONHSAT122186

Variant related genes	Relation type
ENSG00000164713	Chromatin interaction
ENSG00000006453	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10245235	0.85[AFR][1000 genomes]
rs10953249	0.86[AFR][1000 genomes]
rs10953252	0.84[AFR][1000 genomes]
rs13235259	0.84[AFR][1000 genomes]
rs4604367	0.85[AFR][1000 genomes]
rs4729422	0.98[AFR][1000 genomes]
rs4729425	0.82[AFR][1000 genomes]
rs6972314	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs7778082	0.86[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031371	chr7:97312452-98070538	Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv3500384	chr7:97527787-98015382	Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	36 gene(s)	inside rSNPs	diseases
3	esv3500386	chr7:97527787-98015382	Bivalent Enhancer Flanking Active TSS Strong transcription Enhancers Genic enhancers Weak transcription 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	36 gene(s)	inside rSNPs	diseases
4	nsv1017481	chr7:97597641-98041043	Active TSS Weak transcription Flanking Active TSS Genic enhancers Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
5	nsv539031	chr7:97597641-98041043	Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
6	nsv1019531	chr7:97653880-98034129	Weak transcription Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
7	nsv539032	chr7:97653880-98034129	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
8	nsv831066	chr7:97726879-97890550	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	nsv1033029	chr7:97773232-98017992	Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
10	nsv539033	chr7:97773232-98017992	Genic enhancers Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
11	nsv888760	chr7:97816327-97965016	Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Enhancers Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
12	esv1800947	chr7:97857675-97889672	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
13	nsv831067	chr7:97860169-98065528	Bivalent Enhancer Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
14	nsv1026477	chr7:97869446-98034129	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:97881000-97883000	Active TSS	HSMM	muscle
2	chr7:97881800-97883000	Flanking Active TSS	Duodenum Mucosa	Duodenum
3	chr7:97881800-97883000	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
4	chr7:97881800-97883000	Flanking Active TSS	Dnd41	blood
5	chr7:97882000-97883000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
6	chr7:97882000-97883000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr7:97882000-97883000	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
8	chr7:97882000-97883000	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
9	chr7:97882000-97883000	Enhancers	Spleen	Spleen
10	chr7:97882000-97883000	Flanking Active TSS	Hela-S3	cervix
11	chr7:97882200-97883000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr7:97882200-97883000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr7:97882200-97883000	Enhancers	Primary B cells from peripheral blood	blood
14	chr7:97882200-97883000	Enhancers	Primary T helper naive cells from peripheral blood	blood
15	chr7:97882200-97883000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
16	chr7:97882200-97883000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
17	chr7:97882200-97883000	Enhancers	Fetal Brain Male	brain
18	chr7:97882200-97883000	Enhancers	Fetal Thymus	thymus
19	chr7:97882200-97883000	Enhancers	Sigmoid Colon	Sigmoid Colon
20	chr7:97882200-97883200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr7:97882200-97883200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr7:97882200-97883400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
23	chr7:97882200-97883800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr7:97882200-97885800	Weak transcription	Ovary	ovary
25	chr7:97882200-97886200	Weak transcription	Aorta	Aorta
26	chr7:97882200-97887800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
27	chr7:97882200-97889400	Weak transcription	Small Intestine	intestine
28	chr7:97882200-97893200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr7:97882400-97883000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
30	chr7:97882400-97883000	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr7:97882400-97883000	Enhancers	Primary hematopoietic stem cells short term culture	blood
32	chr7:97882400-97883000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
33	chr7:97882400-97883000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
34	chr7:97882400-97883000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr7:97882400-97883000	Enhancers	Muscle Satellite Cultured Cells	--
36	chr7:97882400-97883000	Enhancers	Cortex derived primary cultured neurospheres	brain
37	chr7:97882400-97883000	Enhancers	Adipose Nuclei	Adipose
38	chr7:97882400-97883000	Enhancers	Brain Angular Gyrus	brain
39	chr7:97882400-97883000	Enhancers	Brain Anterior Caudate	brain
40	chr7:97882400-97883000	Enhancers	Brain Cingulate Gyrus	brain
41	chr7:97882400-97883000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
42	chr7:97882400-97883000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
43	chr7:97882400-97883000	Enhancers	Fetal Intestine Small	intestine
44	chr7:97882400-97883000	Enhancers	Placenta	Placenta
45	chr7:97882400-97883000	Enhancers	Left Ventricle	heart
46	chr7:97882400-97883000	Enhancers	Psoas Muscle	Psoas
47	chr7:97882400-97883000	Enhancers	Skeletal Muscle Male	skeletal muscle
48	chr7:97882400-97883000	Enhancers	Stomach Mucosa	stomach
49	chr7:97882400-97883000	Genic enhancers	Thymus	Thymus
50	chr7:97882400-97883000	Enhancers	A549	lung

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