Variant report

Variant	rs35441661
Chromosome Location	chr9:79443397-79443398
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:79441567..79444031-chr9:79444174..79447007,2	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10121266	0.87[EUR][1000 genomes]
rs10121299	0.87[EUR][1000 genomes]
rs12235152	0.87[EUR][1000 genomes]
rs12237165	0.87[EUR][1000 genomes]
rs13293464	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13295176	0.87[EUR][1000 genomes]
rs13295975	0.87[EUR][1000 genomes]
rs13297748	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35045046	0.87[AMR][1000 genomes]
rs35260044	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35990857	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57405993	1.00[ASN][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	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv1040363	chr9:79246366-79711737	Weak transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	esv2758190	chr9:79365865-79673907	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	esv2759697	chr9:79365865-79673907	Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:79418400-79451000	Weak transcription	Fetal Stomach	stomach
2	chr9:79433200-79449800	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr9:79433200-79449800	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr9:79434200-79449800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr9:79435600-79455800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr9:79439600-79444200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr9:79439600-79449600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr9:79440800-79450000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr9:79441000-79449400	Weak transcription	Brain Hippocampus Middle	brain
10	chr9:79441200-79449200	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr9:79441200-79449800	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr9:79441200-79450800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr9:79441400-79448600	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr9:79441400-79449600	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr9:79441400-79461000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr9:79441600-79444200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr9:79441600-79449000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr9:79441600-79449600	Weak transcription	Aorta	Aorta
19	chr9:79441600-79449800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr9:79441800-79443600	Enhancers	Stomach Smooth Muscle	stomach
21	chr9:79441800-79449000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr9:79441800-79449600	Weak transcription	Brain Cingulate Gyrus	brain
23	chr9:79442200-79444000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr9:79442200-79445400	Enhancers	Colon Smooth Muscle	Colon
25	chr9:79442400-79444800	Enhancers	Rectal Smooth Muscle	rectum
26	chr9:79442600-79443400	Enhancers	Brain Substantia Nigra	brain
27	chr9:79442600-79443400	Enhancers	Stomach Mucosa	stomach
28	chr9:79442600-79443400	Strong transcription	HSMMtube	muscle
29	chr9:79442600-79449400	Weak transcription	HSMM	muscle

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