Variant report

Variant	rs56233341
Chromosome Location	chr3:99665851-99665852
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	chr3:99665125..99667947-chr3:99677482..99680159,2	MCF-7	breast:

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs13326691	1.00[AMR][1000 genomes]
rs16841960	1.00[AMR][1000 genomes]
rs6762731	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817478	chr3:99474086-99955548	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv869848	chr3:99652246-99904276	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv932634	chr3:99660690-99888854	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1010579	chr3:99660754-99901817	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1008483	chr3:99660754-99903769	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
7	nsv1010897	chr3:99660754-99904783	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
8	nsv1001529	chr3:99661758-99892654	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
9	nsv536665	chr3:99661758-99892654	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99650400-99667400	Weak transcription	A549	lung
2	chr3:99657600-99686600	Weak transcription	Primary B cells from cord blood	blood
3	chr3:99662400-99666400	Enhancers	Psoas Muscle	Psoas
4	chr3:99663000-99666400	Enhancers	Skeletal Muscle Female	skeletal muscle
5	chr3:99663200-99666400	Enhancers	Skeletal Muscle Male	skeletal muscle
6	chr3:99663400-99669800	Weak transcription	NHLF	lung
7	chr3:99663400-99671200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr3:99663600-99669400	Weak transcription	NH-A	brain
9	chr3:99664200-99667200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr3:99664400-99669400	Weak transcription	Pancreas	Pancrea
11	chr3:99664400-99672200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr3:99664400-99672600	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr3:99664400-99672600	Weak transcription	Gastric	stomach
14	chr3:99664400-99674800	Weak transcription	Right Atrium	heart
15	chr3:99664600-99668200	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr3:99664600-99669400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr3:99664600-99669800	Weak transcription	HSMMtube	muscle
18	chr3:99664600-99672200	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr3:99664600-99676200	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr3:99664800-99666200	Weak transcription	Fetal Muscle Leg	muscle
21	chr3:99664800-99666800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr3:99664800-99667600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr3:99664800-99668200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr3:99664800-99668200	Weak transcription	Duodenum Mucosa	Duodenum
25	chr3:99664800-99668400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr3:99664800-99669600	Weak transcription	HSMM	muscle
27	chr3:99664800-99669800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
28	chr3:99664800-99669800	Weak transcription	Osteobl	bone
29	chr3:99664800-99670400	Weak transcription	NHDF-Ad	bronchial
30	chr3:99664800-99670800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr3:99664800-99672600	Weak transcription	Left Ventricle	heart
32	chr3:99664800-99672800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr3:99664800-99677200	Weak transcription	Esophagus	oesophagus
34	chr3:99664800-99677200	Weak transcription	Ovary	ovary
35	chr3:99665000-99667200	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr3:99665000-99667600	Weak transcription	Adipose Nuclei	Adipose
37	chr3:99665000-99667600	Weak transcription	Fetal Stomach	stomach
38	chr3:99665000-99667600	Weak transcription	Placenta Amnion	Placenta Amnion
39	chr3:99665000-99669800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr3:99665000-99670000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr3:99665000-99670000	Weak transcription	Small Intestine	intestine
42	chr3:99665000-99672400	Weak transcription	Fetal Heart	heart
43	chr3:99665000-99677200	Weak transcription	Rectal Smooth Muscle	rectum
44	chr3:99665000-99677200	Weak transcription	Stomach Smooth Muscle	stomach
45	chr3:99665000-99678800	Weak transcription	Aorta	Aorta
46	chr3:99665200-99673800	Weak transcription	Fetal Lung	lung
47	chr3:99665400-99668400	Weak transcription	Rectal Mucosa Donor 31	rectum
48	chr3:99665600-99667600	Weak transcription	Fetal Intestine Small	intestine
49	chr3:99665600-99669800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr3:99665600-99671000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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