Variant report

Variant	rs12186577
Chromosome Location	chr5:178359989-178359990
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10516152	0.92[JPT][hapmap]
rs11249602	1.00[CEU][hapmap]
rs11948175	0.81[EUR][1000 genomes]
rs11948664	0.81[EUR][1000 genomes]
rs11949180	0.82[EUR][1000 genomes]
rs11949181	0.82[EUR][1000 genomes]
rs11949892	0.82[EUR][1000 genomes]
rs11949941	0.80[EUR][1000 genomes]
rs11950641	0.80[EUR][1000 genomes]
rs11950746	0.80[EUR][1000 genomes]
rs11954382	1.00[MEX][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs11958887	0.82[EUR][1000 genomes]
rs11958941	0.81[EUR][1000 genomes]
rs11960942	0.81[EUR][1000 genomes]
rs12186584	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes]
rs12187167	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes]
rs12553	0.83[EUR][1000 genomes]
rs12652691	0.89[CHB][hapmap]
rs12653128	0.89[CHB][hapmap]
rs12654454	0.89[CHB][hapmap]
rs12654770	0.91[ASN][1000 genomes]
rs12654969	0.89[CHB][hapmap]
rs1566106	0.89[CHB][hapmap];0.84[JPT][hapmap];0.95[TSI][hapmap]
rs17078817	0.92[JPT][hapmap]
rs17078820	0.92[JPT][hapmap]
rs17078829	0.92[JPT][hapmap]
rs17078837	0.83[JPT][hapmap]
rs17078848	0.92[JPT][hapmap]
rs17078852	0.92[JPT][hapmap]
rs17078853	0.92[JPT][hapmap]
rs17078862	0.92[JPT][hapmap]
rs17078877	0.92[JPT][hapmap]
rs17078880	0.92[JPT][hapmap]
rs17664194	0.89[CEU][hapmap];0.87[GIH][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap]
rs2071249	0.92[JPT][hapmap]
rs2645341	0.92[JPT][hapmap]
rs28539861	0.96[EUR][1000 genomes]
rs35609799	0.81[EUR][1000 genomes]
rs35750616	0.91[ASN][1000 genomes]
rs35957383	0.81[EUR][1000 genomes]
rs3733915	0.92[JPT][hapmap]
rs56814168	0.81[EUR][1000 genomes]
rs57438229	0.93[EUR][1000 genomes]
rs58018977	0.81[ASN][1000 genomes]
rs58554591	0.81[EUR][1000 genomes]
rs58941917	0.81[EUR][1000 genomes]
rs59829327	0.81[EUR][1000 genomes]
rs59849584	0.99[EUR][1000 genomes]
rs59987112	0.97[ASN][1000 genomes]
rs61200088	0.90[ASN][1000 genomes]
rs61295075	0.81[EUR][1000 genomes]
rs61492890	0.81[EUR][1000 genomes]
rs61744382	0.99[EUR][1000 genomes]
rs6600991	0.81[EUR][1000 genomes]
rs6859174	0.83[EUR][1000 genomes]
rs6861717	0.82[EUR][1000 genomes]
rs6863160	0.81[EUR][1000 genomes]
rs6863202	0.82[EUR][1000 genomes]
rs6863603	0.83[EUR][1000 genomes]
rs6865216	0.81[EUR][1000 genomes]
rs6866591	0.81[EUR][1000 genomes]
rs6870926	1.00[MEX][hapmap];0.95[TSI][hapmap]
rs6877663	0.81[EUR][1000 genomes]
rs6878353	0.83[EUR][1000 genomes]
rs6882396	0.81[EUR][1000 genomes]
rs6883566	0.81[EUR][1000 genomes]
rs6887256	0.81[EUR][1000 genomes]
rs6894878	1.00[MEX][hapmap];0.95[TSI][hapmap];0.83[EUR][1000 genomes]
rs7706558	0.83[EUR][1000 genomes]
rs7731067	0.83[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv5156	chr5:178346825-178367067	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:178335800-178367000	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
2	chr5:178341600-178367000	ZNF genes & repeats	Fetal Brain Female	brain
3	chr5:178343000-178367200	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
4	chr5:178347800-178366800	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
5	chr5:178347800-178367400	ZNF genes & repeats	Adipose Nuclei	Adipose
6	chr5:178348000-178360200	ZNF genes & repeats	Left Ventricle	heart
7	chr5:178351400-178367400	ZNF genes & repeats	Brain Anterior Caudate	brain
8	chr5:178352200-178363200	ZNF genes & repeats	Skeletal Muscle Female	skeletal muscle
9	chr5:178352200-178366800	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
10	chr5:178352200-178367200	ZNF genes & repeats	Brain Substantia Nigra	brain
11	chr5:178352400-178360200	ZNF genes & repeats	Ovary	ovary
12	chr5:178352400-178369200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr5:178353400-178360400	ZNF genes & repeats	Stomach Smooth Muscle	stomach
14	chr5:178353400-178367400	ZNF genes & repeats	Fetal Muscle Leg	muscle
15	chr5:178353600-178361800	ZNF genes & repeats	Colon Smooth Muscle	Colon
16	chr5:178353600-178365800	ZNF genes & repeats	Skeletal Muscle Male	skeletal muscle
17	chr5:178353800-178362200	ZNF genes & repeats	Placenta	Placenta
18	chr5:178353800-178363000	ZNF genes & repeats	Fetal Lung	lung
19	chr5:178353800-178364000	ZNF genes & repeats	Brain Angular Gyrus	brain
20	chr5:178353800-178366800	ZNF genes & repeats	Brain Cingulate Gyrus	brain
21	chr5:178353800-178367200	ZNF genes & repeats	Brain Hippocampus Middle	brain
22	chr5:178353800-178374800	ZNF genes & repeats	Liver	Liver
23	chr5:178354800-178360200	ZNF genes & repeats	Right Ventricle	heart
24	chr5:178355000-178360400	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
25	chr5:178355000-178360400	ZNF genes & repeats	Rectal Smooth Muscle	rectum
26	chr5:178355600-178361400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
27	chr5:178356400-178360400	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
28	chr5:178356800-178360400	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
29	chr5:178357600-178361800	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr5:178357600-178361800	ZNF genes & repeats	Psoas Muscle	Psoas
31	chr5:178357800-178360200	ZNF genes & repeats	Primary T killer memory cells from peripheral blood	blood
32	chr5:178357800-178360400	ZNF genes & repeats	Brain Dorsolateral Prefrontal Cortex	brain
33	chr5:178357800-178361600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr5:178358200-178360000	ZNF genes & repeats	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr5:178358400-178360400	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr5:178358600-178361600	ZNF genes & repeats	Fetal Brain Male	brain
37	chr5:178359600-178360800	Weak transcription	Fetal Heart	heart

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