Variant report

Variant	rs1382780
Chromosome Location	chr15:73492172-73492173
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs1017809	1.00[CEU][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1029	1.00[CEU][hapmap];0.88[YRI][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1038136	0.85[EUR][1000 genomes]
rs11852881	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs11853109	1.00[CEU][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11856383	0.88[EUR][1000 genomes]
rs11856433	0.88[EUR][1000 genomes]
rs11856466	0.88[EUR][1000 genomes]
rs11857053	0.88[EUR][1000 genomes]
rs12101540	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12101734	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13329282	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1648248	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1678245	1.00[CEU][hapmap];0.88[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16957661	0.85[EUR][1000 genomes]
rs1714529	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1714530	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1714532	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1812363	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1842164	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1895842	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1963253	0.81[EUR][1000 genomes]
rs1963254	0.80[EUR][1000 genomes]
rs1979410	1.00[CEU][hapmap];0.87[YRI][hapmap];0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2169952	0.88[EUR][1000 genomes]
rs2254390	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2254818	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2619259	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2623990	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2623994	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2623996	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2624002	1.00[CEU][hapmap];0.81[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2660823	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2680347	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2680348	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2680350	1.00[CEU][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2680351	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28547177	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28572029	0.85[EUR][1000 genomes]
rs28582318	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28676873	0.88[EUR][1000 genomes]
rs28808999	0.88[EUR][1000 genomes]
rs28828370	0.88[EUR][1000 genomes]
rs4238459	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4287530	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4325518	0.88[EUR][1000 genomes]
rs4539561	0.85[EUR][1000 genomes]
rs4635304	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4776626	0.88[EUR][1000 genomes]
rs4777584	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs490567	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs492448	0.94[AMR][1000 genomes]
rs514632	0.87[YRI][hapmap];0.94[AMR][1000 genomes]
rs524457	1.00[CEU][hapmap];0.85[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs533460	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs550212	0.94[AMR][1000 genomes]
rs55969660	0.88[EUR][1000 genomes]
rs57453823	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs576414	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6495054	0.88[EUR][1000 genomes]
rs7176908	1.00[CEU][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7180017	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73438015	0.83[EUR][1000 genomes]
rs7403367	0.88[EUR][1000 genomes]
rs7497831	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs8031718	0.88[EUR][1000 genomes]
rs8034243	0.85[EUR][1000 genomes]
rs8035717	1.00[CEU][hapmap];0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8038411	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs899480	1.00[CEU][hapmap];0.85[YRI][hapmap];0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9920152	1.00[CEU][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9920459	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9920675	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525462	chr15:73349633-73563495	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv904340	chr15:73375847-73524629	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv904342	chr15:73390790-73524629	Enhancers ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv904343	chr15:73396760-73775043	Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 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	chr15:73455200-73500400	Weak transcription	Rectal Smooth Muscle	rectum
2	chr15:73472000-73496800	Weak transcription	Ovary	ovary
3	chr15:73472200-73504600	Weak transcription	Left Ventricle	heart
4	chr15:73473400-73496400	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr15:73474200-73498200	Weak transcription	Liver	Liver
6	chr15:73474200-73523800	Weak transcription	Esophagus	oesophagus
7	chr15:73474600-73500600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr15:73475200-73517600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr15:73475400-73495600	Weak transcription	Brain Anterior Caudate	brain
10	chr15:73476000-73493800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr15:73476000-73494800	Weak transcription	Brain Hippocampus Middle	brain
12	chr15:73476200-73493800	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr15:73476200-73495000	Weak transcription	Brain Substantia Nigra	brain
14	chr15:73476200-73506200	Weak transcription	Brain Cingulate Gyrus	brain
15	chr15:73477200-73492800	Weak transcription	Fetal Stomach	stomach
16	chr15:73477200-73497400	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr15:73477600-73503800	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr15:73477800-73499200	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr15:73482000-73492600	Weak transcription	Fetal Intestine Large	intestine
20	chr15:73482000-73504600	Weak transcription	Aorta	Aorta
21	chr15:73483000-73493800	Weak transcription	Adipose Nuclei	Adipose
22	chr15:73483600-73505800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr15:73483800-73494800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr15:73486800-73493800	Weak transcription	Fetal Brain Female	brain
25	chr15:73487200-73519800	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr15:73488200-73494800	Weak transcription	Psoas Muscle	Psoas
27	chr15:73489000-73502200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr15:73491400-73492400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
29	chr15:73491400-73492400	Strong transcription	Rectal Mucosa Donor 31	rectum
30	chr15:73491400-73496600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr15:73491800-73492400	Strong transcription	Fetal Lung	lung
32	chr15:73491800-73493400	Strong transcription	Cortex derived primary cultured neurospheres	brain
33	chr15:73492000-73492200	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr15:73492000-73492200	ZNF genes & repeats	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr15:73492000-73492400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr15:73492000-73492400	Strong transcription	Fetal Brain Male	brain
37	chr15:73492000-73493000	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr15:73492000-73493400	ZNF genes & repeats	Fetal Intestine Small	intestine

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