Variant report

Variant	rs61912253
Chromosome Location	chr12:1718086-1718087
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:1716647..1719370-chr12:1719904..1722064,2	MCF-7	breast:
2	chr12:1699689..1706116-chr12:1713524..1719359,13	MCF-7	breast:
3	chr12:1699199..1708657-chr12:1712989..1721243,16	MCF-7	breast:

Variant related genes	Relation type
ENSG00000171823	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs12312620	0.89[ASN][1000 genomes]
rs12317231	0.89[ASN][1000 genomes]
rs13353077	0.89[ASN][1000 genomes]
rs2302029	0.89[ASN][1000 genomes]
rs28384795	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56784338	0.84[ASN][1000 genomes]
rs57176596	0.84[ASN][1000 genomes]
rs57414514	0.84[ASN][1000 genomes]
rs61912254	0.96[EUR][1000 genomes]
rs61912255	0.89[ASN][1000 genomes]
rs7135216	0.89[ASN][1000 genomes]
rs7301393	0.89[ASN][1000 genomes]
rs73032603	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73032610	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73607812	0.89[ASN][1000 genomes]
rs73607816	0.89[ASN][1000 genomes]
rs74058785	0.84[ASN][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	nsv529398	chr12:941915-1741311	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv1042863	chr12:1163817-1902302	Enhancers Genic enhancers Weak transcription Active TSS Strong transcription Flanking 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 miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv541345	chr12:1163817-1902302	Strong transcription Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	esv3397478	chr12:1535455-1730159	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	nsv898584	chr12:1607390-1783251	Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
6	nsv826180	chr12:1614395-1759431	Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
7	nsv826181	chr12:1619798-1754941	Active TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv898586	chr12:1690140-1734365	Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	esv1834423	chr12:1703324-1727170	Active TSS Weak transcription Genic enhancers Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
10	nsv832304	chr12:1710249-1868642	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription 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 miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:1714600-1719000	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr12:1715200-1720200	Enhancers	Stomach Mucosa	stomach
3	chr12:1715200-1723600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr12:1715200-1725800	Weak transcription	Esophagus	oesophagus
5	chr12:1715400-1718200	Weak transcription	Pancreas	Pancrea
6	chr12:1715400-1719600	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr12:1715400-1721800	Enhancers	Primary neutrophils fromperipheralblood	blood
8	chr12:1715400-1738600	Weak transcription	Right Atrium	heart
9	chr12:1715600-1720800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr12:1715600-1720800	Weak transcription	Fetal Brain Male	brain
11	chr12:1715600-1721000	Weak transcription	Fetal Brain Female	brain
12	chr12:1715600-1721200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr12:1715600-1721600	Enhancers	Liver	Liver
14	chr12:1715800-1718200	Enhancers	HSMMtube	muscle
15	chr12:1715800-1718200	Enhancers	Osteobl	bone
16	chr12:1715800-1718400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr12:1715800-1718400	Enhancers	GM12878-XiMat	blood
18	chr12:1715800-1720600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr12:1715800-1720600	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr12:1715800-1720600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr12:1715800-1720600	Weak transcription	Brain Germinal Matrix	brain
22	chr12:1715800-1720600	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr12:1715800-1720600	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr12:1715800-1720600	Weak transcription	NH-A	brain
25	chr12:1715800-1721000	Weak transcription	Brain Angular Gyrus	brain
26	chr12:1715800-1721000	Weak transcription	Brain Cingulate Gyrus	brain
27	chr12:1716200-1718200	Weak transcription	Fetal Muscle Trunk	muscle
28	chr12:1716200-1718400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr12:1716200-1719400	Weak transcription	Fetal Intestine Large	intestine
30	chr12:1716200-1719600	Weak transcription	Fetal Intestine Small	intestine
31	chr12:1716200-1719800	Weak transcription	Small Intestine	intestine
32	chr12:1716200-1720600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr12:1716200-1720600	Weak transcription	HMEC	breast
34	chr12:1716200-1720800	Weak transcription	Colon Smooth Muscle	Colon
35	chr12:1716200-1720800	Weak transcription	Rectal Smooth Muscle	rectum
36	chr12:1716200-1721200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr12:1716200-1721200	Weak transcription	Fetal Heart	heart
38	chr12:1716200-1734600	Weak transcription	Fetal Stomach	stomach
39	chr12:1716400-1720600	Weak transcription	Stomach Smooth Muscle	stomach
40	chr12:1716600-1720600	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr12:1716800-1718800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr12:1716800-1719200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr12:1717000-1718400	Enhancers	Fetal Muscle Leg	muscle
44	chr12:1717000-1718600	Enhancers	Muscle Satellite Cultured Cells	--
45	chr12:1717000-1728800	Weak transcription	Lung	lung
46	chr12:1717200-1718200	Enhancers	NHEK	skin
47	chr12:1717200-1718400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr12:1717200-1718400	Enhancers	Adipose Nuclei	Adipose
49	chr12:1717200-1718600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
50	chr12:1717400-1718200	Weak transcription	Brain Anterior Caudate	brain

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