Variant report

Variant	rs11836960
Chromosome Location	chr12:1722904-1722905
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	USF1	chr12:1722898-1723423	HCT-116	colon:	n/a	chr12:1723199-1723210
2	USF1	chr12:1722897-1723424	ECC-1	luminal epithelium:	n/a	chr12:1723199-1723210

Variant related genes	Relation type
WNT5B	TF binding region

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10848534	1.00[EUR][1000 genomes]
rs11061875	1.00[EUR][1000 genomes]
rs11503087	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11838210	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12311264	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13377750	1.00[EUR][1000 genomes]
rs58098444	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs58275451	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7306444	1.00[EUR][1000 genomes]
rs7312449	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73605897	1.00[EUR][1000 genomes]
rs73605900	1.00[EUR][1000 genomes]
rs73607803	1.00[EUR][1000 genomes]
rs73607820	0.80[AMR][1000 genomes];1.00[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	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:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:1715200-1723600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr12:1715200-1725800	Weak transcription	Esophagus	oesophagus
3	chr12:1715400-1738600	Weak transcription	Right Atrium	heart
4	chr12:1716200-1734600	Weak transcription	Fetal Stomach	stomach
5	chr12:1717000-1728800	Weak transcription	Lung	lung
6	chr12:1717600-1723000	Weak transcription	K562	blood
7	chr12:1717800-1723600	Weak transcription	Primary B cells from cord blood	blood
8	chr12:1718200-1725200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr12:1719600-1725600	Weak transcription	Thymus	Thymus
10	chr12:1719600-1728000	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr12:1720000-1725600	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr12:1720200-1727200	Weak transcription	Fetal Intestine Small	intestine
13	chr12:1720200-1727200	Weak transcription	Stomach Mucosa	stomach
14	chr12:1720800-1725600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr12:1721000-1734400	Weak transcription	Rectal Smooth Muscle	rectum
16	chr12:1721600-1723600	Weak transcription	Fetal Muscle Leg	muscle
17	chr12:1721600-1723600	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr12:1721600-1725200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr12:1721600-1727400	Weak transcription	Adipose Nuclei	Adipose
20	chr12:1721800-1723000	Weak transcription	Primary neutrophils fromperipheralblood	blood
21	chr12:1721800-1724000	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr12:1721800-1727200	Weak transcription	NHLF	lung
23	chr12:1721800-1727800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr12:1721800-1734600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr12:1721800-1738600	Weak transcription	Fetal Brain Female	brain
26	chr12:1722000-1724000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr12:1722200-1723000	Weak transcription	NHDF-Ad	bronchial
28	chr12:1722200-1723200	Weak transcription	HSMM	muscle
29	chr12:1722200-1723600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr12:1722200-1723800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr12:1722200-1725800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr12:1722200-1727400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr12:1722200-1727400	Weak transcription	Osteobl	bone
34	chr12:1722200-1727600	Weak transcription	NH-A	brain
35	chr12:1722400-1723400	Weak transcription	Muscle Satellite Cultured Cells	--
36	chr12:1722400-1723800	Weak transcription	HSMMtube	muscle
37	chr12:1722400-1725800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr12:1722800-1723600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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