Variant report

Variant	rs3008707
Chromosome Location	chr9:16033416-16033417
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	chr9:16032646..16033464-chr9:16130747..16131983,3	MCF-7	breast:

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10738423	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs10738424	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10756734	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs10756735	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10756736	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10756739	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10810518	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10810519	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10810520	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs10810521	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10810522	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10810523	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10810524	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10810526	0.80[EUR][1000 genomes]
rs11788695	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12379466	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1328274	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs1328276	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1328277	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs1328278	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1328279	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1328280	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1359954	0.80[EUR][1000 genomes]
rs1410450	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1410451	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1887666	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1887668	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3008705	0.84[EUR][1000 genomes]
rs4247294	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs4740632	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4741557	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs4741558	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs752489	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs752490	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7873925	0.80[AFR][1000 genomes]
rs943787	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs943788	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs943789	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9792412	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	nsv892637	chr9:15926508-16060746	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv949463	chr9:15970668-16377360	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv831521	chr9:15974174-16106565	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1025555	chr9:16022186-16064158	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16023600-16040600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr9:16026200-16039200	Weak transcription	Adipose Nuclei	Adipose
3	chr9:16026400-16039200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr9:16030400-16034400	Enhancers	NHEK	skin
5	chr9:16030800-16050000	Weak transcription	Aorta	Aorta
6	chr9:16031000-16033800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr9:16031200-16034400	Enhancers	HSMM	muscle
8	chr9:16031600-16034200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:16031600-16035600	Enhancers	Fetal Muscle Leg	muscle
10	chr9:16032200-16033800	Weak transcription	Fetal Muscle Trunk	muscle
11	chr9:16032200-16034000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr9:16032200-16035000	Weak transcription	Dnd41	blood
13	chr9:16032200-16039200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr9:16032800-16037400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr9:16033000-16033800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr9:16033000-16035200	Weak transcription	HMEC	breast
17	chr9:16033200-16039200	Weak transcription	Stomach Smooth Muscle	stomach
18	chr9:16033400-16039200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr9:16033400-16039200	Weak transcription	Osteobl	bone

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