Variant report

Variant	rs826842
Chromosome Location	chr12:39108835-39108836
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs1021258	1.00[CEU][hapmap]
rs1038540	1.00[CEU][hapmap]
rs10747574	1.00[CEU][hapmap]
rs10876185	0.84[JPT][hapmap]
rs1095577	1.00[CEU][hapmap]
rs11169095	1.00[CEU][hapmap]
rs11169407	1.00[CEU][hapmap]
rs12309958	1.00[CEU][hapmap]
rs12422883	0.89[JPT][hapmap]
rs12424244	0.89[JPT][hapmap]
rs12425783	0.88[JPT][hapmap]
rs12578804	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12579377	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12580606	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12580974	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12581826	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12582242	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1486349	1.00[CEU][hapmap]
rs1486352	1.00[CEU][hapmap]
rs1486353	1.00[CEU][hapmap]
rs1615569	1.00[CEU][hapmap]
rs1619885	1.00[CEU][hapmap]
rs1620594	1.00[CEU][hapmap]
rs1620655	1.00[CEU][hapmap]
rs1684419	1.00[CEU][hapmap]
rs1684421	1.00[CEU][hapmap]
rs17126226	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17126713	0.80[JPT][hapmap]
rs1719846	1.00[CEU][hapmap]
rs1843640	1.00[CEU][hapmap]
rs1843641	1.00[CEU][hapmap]
rs1906043	1.00[CEU][hapmap]
rs2388058	1.00[CEU][hapmap]
rs3759140	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4293160	1.00[CEU][hapmap]
rs5005131	1.00[CEU][hapmap]
rs57022911	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57240072	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57501178	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58353662	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58654934	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58895802	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59103577	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs59143762	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59914796	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59996410	0.96[ASN][1000 genomes]
rs60195018	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60305068	0.95[ASN][1000 genomes]
rs60958114	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61265542	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7297083	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7309194	0.89[JPT][hapmap]
rs7315047	0.89[JPT][hapmap]
rs7316085	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7976054	1.00[CEU][hapmap]
rs826836	0.80[JPT][hapmap]
rs9943730	0.89[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv469356	chr12:38242029-39187408	Weak transcription Active TSS ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv558574	chr12:38242029-39187408	Strong transcription ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	nsv1039538	chr12:38640895-39180750	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv1039821	chr12:38959645-39121578	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
5	nsv1053316	chr12:38959645-39122853	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
6	nsv1043831	chr12:38979065-39117868	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
7	nsv541479	chr12:38979065-39117868	ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:39056000-39114800	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr12:39056000-39168600	Weak transcription	Hela-S3	cervix
3	chr12:39066200-39114400	Weak transcription	Pancreas	Pancrea
4	chr12:39069400-39114600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr12:39079200-39114400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr12:39080600-39115600	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr12:39083400-39113200	Weak transcription	Left Ventricle	heart
8	chr12:39086000-39114400	Weak transcription	Aorta	Aorta
9	chr12:39087200-39113800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr12:39089200-39113800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr12:39092600-39153600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr12:39094600-39114600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr12:39095000-39114000	Weak transcription	Liver	Liver
14	chr12:39095200-39114000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr12:39095800-39114600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr12:39095800-39117800	Weak transcription	Primary hematopoietic stem cells	blood
17	chr12:39096800-39113800	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr12:39101400-39111800	Weak transcription	Monocytes-CD14+_RO01746	blood

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