Variant report

Variant	rs680686
Chromosome Location	chr9:15351450-15351451
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:15303560..15305523-chr9:15350040..15352891,2	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs1215126	1.00[AMR][1000 genomes]
rs2154046	1.00[AMR][1000 genomes]
rs2616753	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs588559	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs603418	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs669845	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892624	chr9:15283761-15415461	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv517975	chr9:15286446-15534070	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv613650	chr9:15296119-15378449	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv613651	chr9:15296355-15358157	Flanking Active TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv1015960	chr9:15296783-15380657	ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv524849	chr9:15299590-15362057	Flanking Active TSS Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers 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 target site	35 gene(s)	inside rSNPs	diseases
8	nsv1030287	chr9:15332709-15458001	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15347200-15354000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr9:15349000-15357600	Enhancers	HepG2	liver
3	chr9:15350000-15351600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
4	chr9:15350000-15352000	Enhancers	Primary T cells from cord blood	blood
5	chr9:15350000-15352200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
6	chr9:15350200-15356800	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr9:15350400-15351600	Enhancers	Primary T killer memory cells from peripheral blood	blood
8	chr9:15350600-15351600	Enhancers	Primary T helper cells PMA-I stimulated	--
9	chr9:15350800-15351600	Enhancers	Fetal Thymus	thymus
10	chr9:15350800-15352000	Weak transcription	Stomach Mucosa	stomach
11	chr9:15350800-15352400	Weak transcription	A549	lung
12	chr9:15351000-15351600	Enhancers	Fetal Intestine Small	intestine
13	chr9:15351000-15351800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr9:15351200-15351600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
15	chr9:15351200-15351600	Enhancers	Primary T helper naive cells from peripheral blood	blood
16	chr9:15351200-15351600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
17	chr9:15351200-15351600	Enhancers	Brain Cingulate Gyrus	brain
18	chr9:15351200-15351600	Enhancers	Brain Hippocampus Middle	brain
19	chr9:15351200-15351600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
20	chr9:15351200-15351600	Enhancers	Fetal Intestine Large	intestine
21	chr9:15351200-15351600	Enhancers	Sigmoid Colon	Sigmoid Colon
22	chr9:15351200-15351600	Enhancers	Thymus	Thymus
23	chr9:15351200-15351800	Enhancers	Primary T helper cells fromperipheralblood	blood
24	chr9:15351400-15351800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr9:15351400-15354200	Weak transcription	Primary T cells fromperipheralblood	blood
26	chr9:15351400-15356800	Weak transcription	Rectal Mucosa Donor 31	rectum

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