Variant report

Variant	rs3774542
Chromosome Location	chr3:53741210-53741211
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:53740542..53743254-chr3:53751040..53753856,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs2612029	1.00[YRI][hapmap]
rs2612030	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003621	chr3:53448934-54425322	Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv1001128	chr3:53659570-53927842	Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1013783	chr3:53694418-53934781	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:53683200-53744200	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr3:53723200-53743400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr3:53726600-53744000	Weak transcription	Duodenum Mucosa	Duodenum
4	chr3:53726800-53743400	Weak transcription	Spleen	Spleen
5	chr3:53736800-53744000	Weak transcription	Stomach Smooth Muscle	stomach
6	chr3:53737400-53747800	Weak transcription	Fetal Brain Male	brain
7	chr3:53738400-53741400	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr3:53738800-53744000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr3:53739000-53743400	Enhancers	Fetal Lung	lung
10	chr3:53739200-53741600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr3:53739200-53742000	Weak transcription	Adipose Nuclei	Adipose
12	chr3:53739400-53742000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:53739800-53742800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
14	chr3:53739800-53744400	Enhancers	Fetal Heart	heart
15	chr3:53740000-53744200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr3:53740200-53743000	Weak transcription	Right Ventricle	heart
17	chr3:53740200-53764400	Weak transcription	Brain Cingulate Gyrus	brain
18	chr3:53740400-53745400	Weak transcription	Right Atrium	heart
19	chr3:53740600-53741600	Weak transcription	Fetal Intestine Large	intestine
20	chr3:53740600-53742400	Active TSS	Primary B cells from cord blood	blood
21	chr3:53740600-53744000	Weak transcription	Fetal Thymus	thymus
22	chr3:53740600-53744200	Weak transcription	Brain Anterior Caudate	brain
23	chr3:53740800-53741400	Enhancers	Pancreatic Islets	Pancreatic Islet
24	chr3:53740800-53741800	Active TSS	Primary hematopoietic stem cells	blood
25	chr3:53741000-53741600	Enhancers	Stomach Mucosa	stomach
26	chr3:53741000-53744600	Enhancers	Liver	Liver
27	chr3:53741200-53741400	Enhancers	Left Ventricle	heart
28	chr3:53741200-53741400	Enhancers	Pancreas	Pancrea
29	chr3:53741200-53743200	Enhancers	Fetal Intestine Small	intestine
30	chr3:53741200-53743800	Enhancers	Lung	lung
31	chr3:53741200-53751400	Weak transcription	Fetal Brain Female	brain

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