Variant report

Variant	rs654577
Chromosome Location	chr3:42536417-42536418
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:42516207..42518241-chr3:42534385..42536870,2	MCF-7	breast:
2	chr3:42534099..42536839-chr3:42539322..42541423,2	MCF-7	breast:
3	chr3:42529090..42533443-chr3:42533713..42536852,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000114812	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs73067240	0.85[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	nsv529987	chr3:41921995-42591771	Bivalent Enhancer Weak transcription Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv1005533	chr3:41953873-42596375	Enhancers Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	esv1804804	chr3:42515186-42582403	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv527430	chr3:42534042-42557199	Weak transcription Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:42532200-42538800	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr3:42532600-42537600	Weak transcription	Hela-S3	cervix
3	chr3:42532600-42537800	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr3:42532600-42538000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr3:42532600-42538000	Weak transcription	A549	lung
6	chr3:42532600-42538400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr3:42532600-42538400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr3:42532600-42538600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr3:42532600-42538800	Weak transcription	Esophagus	oesophagus
10	chr3:42532800-42537800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr3:42533800-42538600	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr3:42534000-42538600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr3:42534000-42539600	Weak transcription	Brain Cingulate Gyrus	brain
14	chr3:42534200-42538600	Weak transcription	Gastric	stomach
15	chr3:42534200-42538600	Weak transcription	Stomach Mucosa	stomach
16	chr3:42534800-42538600	Weak transcription	Right Atrium	heart
17	chr3:42534800-42542800	Weak transcription	Right Ventricle	heart
18	chr3:42535000-42537200	Weak transcription	Duodenum Mucosa	Duodenum
19	chr3:42535000-42538800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr3:42535000-42543000	Weak transcription	Left Ventricle	heart
21	chr3:42535200-42538600	Weak transcription	Placenta	Placenta
22	chr3:42535200-42542800	Weak transcription	Pancreas	Pancrea
23	chr3:42535400-42538000	Weak transcription	Fetal Heart	heart
24	chr3:42535600-42538400	Weak transcription	Adipose Nuclei	Adipose
25	chr3:42535600-42538600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr3:42535600-42538600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr3:42535600-42538600	Weak transcription	GM12878-XiMat	blood
28	chr3:42535600-42538800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr3:42535600-42538800	Weak transcription	Spleen	Spleen
30	chr3:42535600-42543000	Weak transcription	Lung	lung

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