Variant report

Variant	rs56149636
Chromosome Location	chr12:32555883-32555884
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	chr12:32551819..32553534-chr12:32555515..32557617,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000139132	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1055875	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs191257	1.00[ASN][1000 genomes]
rs325433	1.00[ASN][1000 genomes]
rs325434	1.00[ASN][1000 genomes]
rs325435	1.00[ASN][1000 genomes]
rs34447944	1.00[AFR][1000 genomes]
rs35919769	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs55686847	1.00[AFR][1000 genomes]
rs55843628	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56141196	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs56205831	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs56253344	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56262267	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56386122	1.00[AFR][1000 genomes]
rs7977216	0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531960	chr12:32257285-32775277	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	esv2751096	chr12:32280340-32702784	Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv558171	chr12:32287259-32559693	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv469346	chr12:32531220-32587465	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv558188	chr12:32531220-32587465	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1054191	chr12:32534619-32733066	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	nsv541455	chr12:32534619-32733066	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	esv3342938	chr12:32551041-32716745	Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
9	nsv469347	chr12:32555846-32602079	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv558189	chr12:32555846-32602079	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:32553400-32572200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr12:32553400-32572200	Weak transcription	HSMMtube	muscle
3	chr12:32553400-32572400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr12:32553600-32556000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr12:32553600-32572600	Weak transcription	Esophagus	oesophagus
6	chr12:32553800-32556000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr12:32553800-32571600	Weak transcription	Left Ventricle	heart
8	chr12:32554000-32572200	Weak transcription	Right Ventricle	heart
9	chr12:32554200-32556000	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr12:32554200-32556000	Enhancers	NHEK	skin
11	chr12:32554200-32559600	Weak transcription	A549	lung
12	chr12:32554200-32561200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr12:32554200-32566400	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr12:32554200-32571800	Weak transcription	Ovary	ovary
15	chr12:32554200-32573800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr12:32554400-32556800	Weak transcription	Colonic Mucosa	Colon
17	chr12:32554400-32559800	Weak transcription	Psoas Muscle	Psoas
18	chr12:32554600-32556000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr12:32554600-32556200	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr12:32554600-32557000	Enhancers	Primary monocytes fromperipheralblood	blood
21	chr12:32554600-32572400	Weak transcription	Fetal Intestine Large	intestine
22	chr12:32554600-32593200	Weak transcription	Rectal Mucosa Donor 29	rectum
23	chr12:32554800-32556000	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr12:32554800-32556200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr12:32554800-32556800	Weak transcription	Liver	Liver
26	chr12:32555000-32556000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr12:32555200-32556400	Transcr. at gene 5' and 3'	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr12:32555200-32556400	Enhancers	HMEC	breast
29	chr12:32555200-32556600	Enhancers	Muscle Satellite Cultured Cells	--
30	chr12:32555200-32556600	Enhancers	Stomach Mucosa	stomach
31	chr12:32555200-32557200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
32	chr12:32555200-32557600	Genic enhancers	iPS-18 Cell Line	embryonic stem cell
33	chr12:32555200-32557600	Genic enhancers	ES-UCSF4 Cell Line	embryonic stem cell
34	chr12:32555400-32556400	Genic enhancers	HUES6 Cell Line	embryonic stem cell
35	chr12:32555400-32556400	Enhancers	Fetal Intestine Small	intestine
36	chr12:32555400-32556600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr12:32555400-32558400	Weak transcription	Gastric	stomach
38	chr12:32555400-32571400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr12:32555400-32572000	Weak transcription	Duodenum Mucosa	Duodenum
40	chr12:32555600-32556000	Enhancers	HUES64 Cell Line	embryonic stem cell
41	chr12:32555600-32556200	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr12:32555600-32556200	Enhancers	iPS-15b Cell Line	embryonic stem cell
43	chr12:32555600-32556600	Weak transcription	Pancreas	Pancrea
44	chr12:32555600-32556600	Enhancers	Rectal Mucosa Donor 31	rectum
45	chr12:32555600-32557600	Genic enhancers	HUES48 Cell Line	embryonic stem cell
46	chr12:32555600-32558600	Weak transcription	Adipose Nuclei	Adipose
47	chr12:32555600-32571400	Weak transcription	Lung	lung
48	chr12:32555800-32556000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr12:32555800-32556400	Transcr. at gene 5' and 3'	iPS-20b Cell Line	embryonic stem cell
50	chr12:32555800-32556400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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