Variant report

Variant	rs12424644
Chromosome Location	chr12:72669295-72669296
allele	A/G
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	CHD1	chr12:72664483-72669298	IMR90	lung:	n/a	chr12:72665403-72665413 chr12:72666399-72666409

Variant related genes	Relation type
TRHDE-AS1	TF binding region

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs12423531	0.89[ASN][1000 genomes]
rs12423974	0.85[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12425628	0.85[ASN][1000 genomes]
rs12426189	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs12579464	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs17110954	1.00[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs17725193	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs17725446	0.93[ASN][1000 genomes]
rs17782464	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs3803029	1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4073007	0.85[CHB][hapmap];0.81[CHD][hapmap];0.82[JPT][hapmap];0.83[ASN][1000 genomes]
rs4073008	0.91[ASN][1000 genomes]
rs4073009	0.85[ASN][1000 genomes]
rs4408352	0.85[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs4523734	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4544048	0.93[ASN][1000 genomes]
rs4616080	0.85[ASN][1000 genomes]
rs56262673	0.91[ASN][1000 genomes]
rs57557274	0.87[ASN][1000 genomes]
rs58523622	0.95[ASN][1000 genomes]
rs59211589	0.91[ASN][1000 genomes]
rs59585902	0.87[ASN][1000 genomes]
rs73336638	0.93[ASN][1000 genomes]
rs73336641	0.87[ASN][1000 genomes]
rs73336644	0.87[ASN][1000 genomes]
rs73336682	0.95[ASN][1000 genomes]
rs73336696	0.95[ASN][1000 genomes]
rs73350816	0.82[ASN][1000 genomes]
rs74103677	0.87[ASN][1000 genomes]
rs74103702	0.95[ASN][1000 genomes]
rs74105306	0.95[ASN][1000 genomes]
rs7960623	1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7979378	1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][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	esv2422452	chr12:72485933-73175581	Flanking Bivalent TSS/Enh Active TSS Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv899257	chr12:72569746-73145896	ZNF genes & repeats Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv832452	chr12:72584971-72764495	Enhancers Bivalent/Poised TSS Genic enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv899258	chr12:72624088-72957899	Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv559362	chr12:72641784-72694691	Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	nsv1044083	chr12:72647640-73275526	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
7	nsv469465	chr12:72655925-73259114	Weak transcription Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
8	nsv559363	chr12:72655925-73259114	Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
9	nsv868884	chr12:72664763-73241518	Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:72663200-72670200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr12:72663200-72671200	Active TSS	NH-A	brain
3	chr12:72663400-72669400	Active TSS	Right Atrium	heart
4	chr12:72665800-72671400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr12:72667800-72671400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr12:72667800-72671400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr12:72668000-72669400	Bivalent Enhancer	Fetal Lung	lung
8	chr12:72668000-72670800	Active TSS	NHLF	lung
9	chr12:72668200-72670400	Active TSS	Ovary	ovary
10	chr12:72668400-72669800	Active TSS	Fetal Intestine Large	intestine
11	chr12:72668600-72670400	Enhancers	Monocytes-CD14+_RO01746	blood
12	chr12:72668600-72670600	Active TSS	Adipose Nuclei	Adipose
13	chr12:72668600-72670600	Enhancers	HMEC	breast
14	chr12:72668800-72670200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr12:72668800-72670400	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr12:72668800-72671000	Active TSS	Fetal Kidney	kidney
17	chr12:72669000-72670200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr12:72669000-72670200	Weak transcription	Pancreas	Pancrea
19	chr12:72669000-72673400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr12:72669200-72669400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
21	chr12:72669200-72669400	Enhancers	Fetal Intestine Small	intestine

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