Variant report

Variant	rs17027099
Chromosome Location	chr2:86478629-86478630
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:86477514..86479330-chr2:86482414..86484551,2	MCF-7	breast:
2	chr2:86475992..86479519-chr2:86480765..86483211,4	K562	blood:
3	chr2:86478613..86482066-chr2:86482381..86485605,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000068615	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10167802	0.83[AFR][1000 genomes]
rs10188530	1.00[ASW][hapmap];1.00[MEX][hapmap]
rs10204589	0.96[LWK][hapmap]
rs12328643	1.00[MEX][hapmap]
rs12329034	1.00[MEX][hapmap]
rs13388621	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.86[YRI][hapmap];0.93[AFR][1000 genomes]
rs13390539	0.88[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13401290	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13417321	0.81[AFR][1000 genomes]
rs13418778	0.86[YRI][hapmap];0.93[AFR][1000 genomes]
rs13428304	0.86[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13432512	1.00[MEX][hapmap]
rs17026975	1.00[MEX][hapmap]
rs17027101	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17027112	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.86[YRI][hapmap];0.93[AFR][1000 genomes]
rs17027115	0.92[YRI][hapmap];0.93[AFR][1000 genomes]
rs28645407	0.93[AFR][1000 genomes]
rs55654200	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55721426	0.93[AFR][1000 genomes]
rs61708076	0.93[AFR][1000 genomes]
rs6547667	1.00[MEX][hapmap]
rs72938382	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73944919	0.93[AFR][1000 genomes]
rs73945268	0.93[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:19 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2751903	chr2:86253542-86505453	Active TSS Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv1007474	chr2:86281967-86505453	Enhancers Flanking Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv997563	chr2:86281967-86506132	Genic enhancers Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
4	nsv1008924	chr2:86282722-86499402	Genic enhancers Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
5	nsv999956	chr2:86285944-86505453	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
6	nsv1012768	chr2:86285944-86506132	Strong transcription Weak transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
7	nsv1003207	chr2:86286314-86496732	Genic enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
8	nsv1000441	chr2:86286314-86508168	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
9	nsv535808	chr2:86286314-86508168	Genic enhancers Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
10	nsv1004442	chr2:86286480-86506132	Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
11	nsv916616	chr2:86289130-86509326	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
12	nsv458563	chr2:86292341-86507688	Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
13	nsv582370	chr2:86292341-86507688	Flanking Active TSS Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
14	nsv1009140	chr2:86294939-86506132	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
15	nsv582371	chr2:86296566-86507688	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
16	nsv1001157	chr2:86301440-86508168	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
17	esv3412938	chr2:86370969-86867936	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
18	nsv458574	chr2:86385728-86507688	Enhancers Flanking Active TSS Genic enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS 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 miRNA target site	36 gene(s)	inside rSNPs	diseases
19	nsv582372	chr2:86385728-86507688	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:86459800-86479200	Weak transcription	Esophagus	oesophagus
2	chr2:86460800-86479400	Weak transcription	Brain Anterior Caudate	brain
3	chr2:86463000-86482000	Weak transcription	Psoas Muscle	Psoas
4	chr2:86467600-86479000	Weak transcription	Right Ventricle	heart
5	chr2:86468400-86481600	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr2:86468800-86482400	Weak transcription	Gastric	stomach
7	chr2:86470600-86479000	Weak transcription	Lung	lung
8	chr2:86470800-86479000	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr2:86470800-86482000	Weak transcription	Aorta	Aorta
10	chr2:86471800-86482000	Weak transcription	Right Atrium	heart
11	chr2:86472000-86497200	Weak transcription	Fetal Intestine Large	intestine
12	chr2:86472200-86479000	Weak transcription	Left Ventricle	heart
13	chr2:86472200-86482000	Weak transcription	Pancreas	Pancrea
14	chr2:86472400-86479400	Weak transcription	Stomach Mucosa	stomach
15	chr2:86472400-86484800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr2:86476000-86479800	Enhancers	Rectal Smooth Muscle	rectum
17	chr2:86476400-86479600	Enhancers	Duodenum Smooth Muscle	Duodenum
18	chr2:86476600-86478800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
19	chr2:86476800-86481800	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr2:86477000-86480800	Strong transcription	Fetal Intestine Small	intestine
21	chr2:86477400-86481600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr2:86477400-86481800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr2:86477400-86481800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr2:86477600-86479600	Enhancers	Colon Smooth Muscle	Colon
25	chr2:86477600-86481800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr2:86477600-86481800	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr2:86477600-86482000	Weak transcription	Duodenum Mucosa	Duodenum
28	chr2:86477800-86478800	Bivalent Enhancer	HepG2	liver
29	chr2:86477800-86479400	Genic enhancers	Fetal Muscle Leg	muscle
30	chr2:86477800-86479800	Enhancers	Brain Inferior Temporal Lobe	brain
31	chr2:86477800-86493200	Weak transcription	Fetal Muscle Trunk	muscle
32	chr2:86478000-86479600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
33	chr2:86478200-86479400	Strong transcription	Brain Germinal Matrix	brain
34	chr2:86478200-86480800	Strong transcription	HSMMtube	muscle
35	chr2:86478200-86481800	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr2:86478200-86482400	Weak transcription	Fetal Brain Male	brain
37	chr2:86478200-86483200	Enhancers	Fetal Heart	heart
38	chr2:86478200-86498600	Weak transcription	Brain Angular Gyrus	brain
39	chr2:86478400-86479000	Weak transcription	Fetal Stomach	stomach
40	chr2:86478400-86479400	Genic enhancers	Fetal Brain Female	brain
41	chr2:86478400-86491400	Weak transcription	Brain Cingulate Gyrus	brain
42	chr2:86478600-86480000	Enhancers	Stomach Smooth Muscle	stomach

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