Variant report

Variant	rs2522138
Chromosome Location	chr12:120742144-120742145
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:120741905..120744890-chr12:120753500..120756335,2	MCF-7	breast:
2	chr12:120740147..120741749-chr12:120742037..120744644,2	K562	blood:
3	chr12:120737630..120743237-chr12:120750628..120756565,17	MCF-7	breast:

Variant related genes	Relation type
ENSG00000089163	Chromatin interaction
ENSG00000252659	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10849743	0.86[ASN][1000 genomes]
rs11065075	0.96[EUR][1000 genomes]
rs11065091	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11614028	0.81[EUR][1000 genomes]
rs1179387	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1557769	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs206951	0.82[EUR][1000 genomes]
rs206966	0.83[CEU][hapmap]
rs2522129	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[MKK][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2522141	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2696027	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3742038	0.83[CEU][hapmap];0.82[CHB][hapmap];0.89[TSI][hapmap]
rs5637	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67706074	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7137625	0.81[CHD][hapmap];0.82[JPT][hapmap]
rs7314115	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73416934	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs965791	0.90[CEU][hapmap];0.94[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv899555	chr12:120519124-120840522	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	499 gene(s)	inside rSNPs	diseases
2	nsv832530	chr12:120586069-120758175	Flanking Active TSS Strong transcription Enhancers Genic enhancers Weak transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	484 gene(s)	inside rSNPs	diseases
3	nsv1035698	chr12:120645330-120777580	Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	436 gene(s)	inside rSNPs	diseases
4	nsv1047447	chr12:120645330-120808621	Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	436 gene(s)	inside rSNPs	diseases
5	nsv560435	chr12:120695141-120769657	Flanking Active TSS Bivalent Enhancer Active TSS Enhancers Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	433 gene(s)	inside rSNPs	diseases
6	nsv899556	chr12:120695141-120779931	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	433 gene(s)	inside rSNPs	diseases
7	esv1799498	chr12:120725939-120745740	Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	429 gene(s)	inside rSNPs	diseases
8	esv2763006	chr12:120731346-120750746	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	96 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:120740000-120742200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr12:120740400-120754600	Weak transcription	Stomach Mucosa	stomach
3	chr12:120740400-120754800	Weak transcription	Spleen	Spleen
4	chr12:120740600-120754600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr12:120740600-120754800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr12:120740800-120742400	Enhancers	Pancreas	Pancrea
7	chr12:120740800-120747000	Weak transcription	Colonic Mucosa	Colon
8	chr12:120741000-120742600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr12:120741000-120744000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr12:120741000-120744400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr12:120741000-120745400	Weak transcription	Primary B cells from cord blood	blood
12	chr12:120741000-120747000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr12:120741000-120754200	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr12:120741000-120754200	Weak transcription	Placenta	Placenta
15	chr12:120741000-120754400	Weak transcription	Primary hematopoietic stem cells	blood
16	chr12:120741000-120754400	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr12:120741000-120754600	Weak transcription	Primary T cells from cord blood	blood
18	chr12:120741000-120754600	Weak transcription	Primary T helper cells PMA-I stimulated	--
19	chr12:120741000-120754600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
20	chr12:120741000-120754600	Weak transcription	Primary T helper cells fromperipheralblood	blood
21	chr12:120741000-120754600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr12:120741000-120754600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr12:120741000-120754600	Weak transcription	Brain Angular Gyrus	brain
24	chr12:120741000-120754600	Weak transcription	Brain Anterior Caudate	brain
25	chr12:120741000-120754600	Weak transcription	Brain Cingulate Gyrus	brain
26	chr12:120741000-120754600	Weak transcription	Brain Hippocampus Middle	brain
27	chr12:120741000-120754600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr12:120741000-120754600	Weak transcription	Colon Smooth Muscle	Colon
29	chr12:120741000-120754600	Weak transcription	Fetal Heart	heart
30	chr12:120741000-120754600	Weak transcription	Fetal Intestine Small	intestine
31	chr12:120741000-120754600	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr12:120741000-120754600	Weak transcription	Right Ventricle	heart
33	chr12:120741000-120754600	Weak transcription	Stomach Smooth Muscle	stomach
34	chr12:120741200-120744200	Weak transcription	Fetal Muscle Trunk	muscle
35	chr12:120741200-120753800	Weak transcription	Liver	Liver
36	chr12:120741200-120754200	Weak transcription	Fetal Brain Female	brain
37	chr12:120741200-120754600	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr12:120741400-120742200	Strong transcription	Fetal Stomach	stomach
39	chr12:120741400-120754600	Weak transcription	Brain Germinal Matrix	brain
40	chr12:120741400-120754600	Weak transcription	Thymus	Thymus
41	chr12:120741600-120742200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr12:120741600-120742600	Strong transcription	Fetal Muscle Leg	muscle
43	chr12:120741600-120743600	Strong transcription	Skeletal Muscle Male	skeletal muscle
44	chr12:120741600-120754000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr12:120741600-120754200	Weak transcription	Lung	lung
46	chr12:120741600-120754600	Weak transcription	Brain Substantia Nigra	brain
47	chr12:120741800-120754600	Weak transcription	Left Ventricle	heart
48	chr12:120742000-120742200	Enhancers	Dnd41	blood
49	chr12:120742000-120742600	Weak transcription	Ovary	ovary
50	chr12:120742000-120746600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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