Variant report

Variant	rs36039354
Chromosome Location	chr3:135774361-135774362
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PCCB-2	chr3:135774026-135774606	NONHSAT092273

Extended variants
information (count: 101 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:99)

rs_ID	r²[population]
rs10048942	1.00[ASN][1000 genomes]
rs10049233	1.00[ASN][1000 genomes]
rs10935175	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13072596	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13082684	1.00[ASN][1000 genomes]
rs13097946	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13098245	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13322891	0.92[ASN][1000 genomes]
rs13325914	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1356664	0.92[ASN][1000 genomes]
rs1401545	0.92[ASN][1000 genomes]
rs1403766	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1403767	0.92[ASN][1000 genomes]
rs1403770	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1523595	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1523596	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1523597	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1568350	0.92[ASN][1000 genomes]
rs17196987	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17197552	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17250445	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28449384	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28570106	0.86[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs28576629	1.00[ASN][1000 genomes]
rs28855968	0.86[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs28875187	0.92[ASN][1000 genomes]
rs34311570	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34409306	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34522617	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34767379	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35257855	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35722356	0.92[ASN][1000 genomes]
rs4073308	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4718	0.92[ASN][1000 genomes]
rs55678980	0.92[ASN][1000 genomes]
rs56308637	0.92[ASN][1000 genomes]
rs67039922	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6771224	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6771997	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6774289	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6775778	1.00[ASN][1000 genomes]
rs6786769	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6807058	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6807242	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6807565	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6809006	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6810223	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs71336046	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73222222	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7427833	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7433567	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7621331	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7621396	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7621425	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7628848	1.00[ASN][1000 genomes]
rs7641070	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7643661	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs870812	0.92[ASN][1000 genomes]
rs908825	0.92[ASN][1000 genomes]
rs9289502	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9289503	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9808979	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9812561	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9814505	0.86[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs9814557	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9819440	0.92[ASN][1000 genomes]
rs9820189	0.86[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs9825239	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9826806	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9833699	0.92[ASN][1000 genomes]
rs9834104	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9834624	0.92[ASN][1000 genomes]
rs9836374	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9836758	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9837355	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9837855	0.83[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs9842840	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9842864	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9843725	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9846137	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9848322	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9851361	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9853577	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9854494	0.92[ASN][1000 genomes]
rs9862264	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9862743	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9862763	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9862777	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9864247	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9864514	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9864775	0.92[ASN][1000 genomes]
rs9868246	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9870581	0.92[ASN][1000 genomes]
rs9872542	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9875328	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9875948	0.92[ASN][1000 genomes]
rs9877082	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9877722	0.92[ASN][1000 genomes]
rs9880721	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv4023	chr3:135772198-135816635	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135738000-135775800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:135746200-135790000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:135750800-135775800	Weak transcription	Liver	Liver
4	chr3:135755200-135801400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr3:135761000-135802400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr3:135761600-135783400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr3:135763000-135785600	Weak transcription	Brain Anterior Caudate	brain
8	chr3:135763200-135775000	Strong transcription	Fetal Muscle Leg	muscle
9	chr3:135763200-135776800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr3:135763600-135775600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:135764400-135790400	Weak transcription	Brain Cingulate Gyrus	brain
12	chr3:135764600-135774400	Weak transcription	NHEK	skin
13	chr3:135764600-135778000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr3:135764800-135775800	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr3:135764800-135790400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr3:135765000-135776400	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr3:135765000-135777800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr3:135765000-135781000	Weak transcription	Fetal Brain Female	brain
19	chr3:135765000-135781200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr3:135765000-135781200	Weak transcription	Fetal Intestine Small	intestine
21	chr3:135765000-135786000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr3:135765000-135801800	Weak transcription	Esophagus	oesophagus
23	chr3:135765400-135777600	Weak transcription	Placenta Amnion	Placenta Amnion
24	chr3:135765600-135784200	Weak transcription	Fetal Kidney	kidney
25	chr3:135765600-135785400	Weak transcription	Pancreas	Pancrea
26	chr3:135767000-135775000	Strong transcription	Stomach Smooth Muscle	stomach
27	chr3:135767200-135774400	Weak transcription	Fetal Brain Male	brain
28	chr3:135768000-135776600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr3:135768800-135776600	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr3:135768800-135800800	Weak transcription	HUES64 Cell Line	embryonic stem cell
31	chr3:135769600-135774800	Weak transcription	NHLF	lung
32	chr3:135769800-135789400	Weak transcription	Colon Smooth Muscle	Colon
33	chr3:135769800-135789800	Weak transcription	Psoas Muscle	Psoas
34	chr3:135769800-135790000	Weak transcription	Aorta	Aorta
35	chr3:135769800-135790400	Weak transcription	Primary hematopoietic stem cells	blood
36	chr3:135770000-135776600	Weak transcription	Brain Hippocampus Middle	brain
37	chr3:135770000-135787200	Weak transcription	Osteobl	bone
38	chr3:135770000-135789800	Weak transcription	Duodenum Smooth Muscle	Duodenum
39	chr3:135770000-135800800	Weak transcription	Fetal Intestine Large	intestine
40	chr3:135770200-135775200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr3:135770400-135789800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr3:135770800-135775000	Strong transcription	Placenta	Placenta
43	chr3:135770800-135781200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr3:135771200-135802000	Weak transcription	Brain Germinal Matrix	brain
45	chr3:135771200-135809600	Weak transcription	Gastric	stomach
46	chr3:135771400-135776200	Weak transcription	Lung	lung
47	chr3:135771400-135778200	Weak transcription	Fetal Lung	lung
48	chr3:135771400-135789000	Weak transcription	HSMMtube	muscle
49	chr3:135772200-135774800	Strong transcription	NH-A	brain
50	chr3:135772600-135780200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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