Variant report

Variant	rs72899527
Chromosome Location	chr1:45154562-45154563
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:45152183..45156553-chr1:45186347..45188744,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000199377	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11581074	0.88[EUR][1000 genomes]
rs11582807	0.88[EUR][1000 genomes]
rs12022097	0.89[EUR][1000 genomes]
rs3889696	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4660818	0.88[EUR][1000 genomes]
rs4660821	0.88[EUR][1000 genomes]
rs4660822	0.88[EUR][1000 genomes]
rs61789885	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6663584	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6668870	0.88[EUR][1000 genomes]
rs6678831	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7539312	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533037	chr1:44361728-45333408	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	469 gene(s)	inside rSNPs	diseases
2	nsv1004861	chr1:44843654-45210176	Flanking Active TSS Genic enhancers Enhancers Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	346 gene(s)	inside rSNPs	diseases
3	nsv534940	chr1:44843654-45210176	Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	346 gene(s)	inside rSNPs	diseases
4	nsv998476	chr1:45001278-45311757	Flanking Active TSS Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	426 gene(s)	inside rSNPs	diseases
5	nsv534941	chr1:45001278-45311757	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	426 gene(s)	inside rSNPs	diseases
6	nsv1014894	chr1:45139123-45397943	Flanking Active TSS Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	414 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	chr1:45141000-45154800	Weak transcription	Ovary	ovary
2	chr1:45141200-45164400	Weak transcription	Fetal Brain Female	brain
3	chr1:45142000-45158600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr1:45142000-45159400	Weak transcription	Brain Hippocampus Middle	brain
5	chr1:45143600-45160600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr1:45143600-45171800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr1:45145000-45157000	Weak transcription	Brain Anterior Caudate	brain
8	chr1:45146000-45172400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr1:45146600-45158800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr1:45148000-45157200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr1:45148200-45154600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr1:45148200-45155000	Weak transcription	Pancreas	Pancrea
13	chr1:45149000-45154600	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr1:45149400-45166000	Weak transcription	Liver	Liver
15	chr1:45150800-45161600	Weak transcription	Primary T cells from cord blood	blood
16	chr1:45151000-45160200	Weak transcription	Primary B cells from cord blood	blood
17	chr1:45151800-45158800	Weak transcription	GM12878-XiMat	blood
18	chr1:45153800-45155400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr1:45154000-45161400	Weak transcription	Brain Cingulate Gyrus	brain
20	chr1:45154200-45155400	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr1:45154200-45155400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
22	chr1:45154200-45155400	Enhancers	HUES48 Cell Line	embryonic stem cell
23	chr1:45154200-45155400	Enhancers	iPS-18 Cell Line	embryonic stem cell
24	chr1:45154400-45154600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
25	chr1:45154400-45155400	Enhancers	HUES64 Cell Line	embryonic stem cell
26	chr1:45154400-45155400	Enhancers	iPS-20b Cell Line	embryonic stem cell
27	chr1:45154400-45155400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr1:45154400-45155400	Enhancers	HepG2	liver
29	chr1:45154400-45155600	Enhancers	HUES6 Cell Line	embryonic stem cell

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