Variant report

Variant	rs11577409
Chromosome Location	chr1:216777982-216777983
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	chr1:216772875..216776991-chr1:216777748..216786237,10	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10495031	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs10863255	0.82[AFR][1000 genomes]
rs10863257	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs11117619	0.82[AFR][1000 genomes]
rs11117622	0.82[AFR][1000 genomes]
rs11117623	0.82[AFR][1000 genomes]
rs11117625	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs11117632	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs11117633	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs11117637	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs11117638	0.83[AMR][1000 genomes]
rs11117639	0.83[AMR][1000 genomes]
rs11572727	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs11572731	0.82[AMR][1000 genomes]
rs11581434	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs11585397	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs11587086	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs11590373	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12122051	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12123789	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12128352	0.83[AMR][1000 genomes]
rs12129039	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12131827	0.81[AMR][1000 genomes]
rs12133226	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12136640	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12140540	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12145447	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17669502	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs17671012	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs2173371	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs35079003	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72737319	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv549199	chr1:216384908-216814702	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv1003815	chr1:216504235-216836498	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv535289	chr1:216504235-216836498	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv873178	chr1:216714314-216813244	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:216775000-216779200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr1:216775000-216780200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr1:216775200-216778200	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr1:216775200-216778400	Weak transcription	Fetal Lung	lung
5	chr1:216775200-216779200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr1:216775200-216779200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr1:216775200-216779400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr1:216775200-216779400	Weak transcription	Fetal Stomach	stomach
9	chr1:216775200-216789400	Weak transcription	Right Atrium	heart
10	chr1:216775200-216835400	Weak transcription	Fetal Intestine Small	intestine
11	chr1:216775400-216778600	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr1:216775600-216778200	Weak transcription	Fetal Heart	heart
13	chr1:216775600-216783600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr1:216777600-216778000	Enhancers	Left Ventricle	heart
15	chr1:216777600-216778200	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr1:216777600-216778400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr1:216777600-216778400	Enhancers	Fetal Muscle Leg	muscle
18	chr1:216777600-216779000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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