Variant report

Variant	rs167151
Chromosome Location	chr3:191113239-191113240
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PYDC2-5	chr3:191113180-191116458	NONHSAT093967

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1473867	0.91[CHB][hapmap];0.86[ASN][1000 genomes]
rs1473868	0.90[CHB][hapmap];0.81[JPT][hapmap];0.86[ASN][1000 genomes]
rs1662182	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs167152	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1708285	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs176825	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs184141	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs293838	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs293853	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs366757	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs383437	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs385582	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs405212	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs538465	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs542437	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55827603	0.85[ASN][1000 genomes]
rs59855028	0.85[ASN][1000 genomes]
rs697909	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs697910	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs697911	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931943	chr3:190860224-191321873	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2757910	chr3:190867011-191279107	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2759209	chr3:190867011-191279107	Weak transcription Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv428428	chr3:190936834-191215596	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv998208	chr3:191021434-191175350	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv534269	chr3:191037181-191261730	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:191071200-191114000	Weak transcription	Colonic Mucosa	Colon
2	chr3:191079400-191115800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:191079600-191116400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:191079600-191121200	Weak transcription	Gastric	stomach
5	chr3:191080200-191118800	Weak transcription	Pancreas	Pancrea
6	chr3:191087000-191115400	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr3:191088600-191119600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr3:191093400-191119400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr3:191093400-191121400	Weak transcription	Esophagus	oesophagus
10	chr3:191094800-191114800	Weak transcription	A549	lung
11	chr3:191096000-191130200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr3:191096600-191114800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr3:191099400-191122000	Weak transcription	Fetal Brain Male	brain
14	chr3:191099600-191113800	Weak transcription	Brain Hippocampus Middle	brain
15	chr3:191099600-191114000	Weak transcription	Rectal Smooth Muscle	rectum
16	chr3:191099600-191114600	Weak transcription	Primary hematopoietic stem cells	blood
17	chr3:191099600-191120000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr3:191099800-191117600	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr3:191100200-191119200	Weak transcription	Right Ventricle	heart
20	chr3:191100200-191119400	Weak transcription	Psoas Muscle	Psoas
21	chr3:191100200-191119600	Weak transcription	K562	blood
22	chr3:191100400-191114000	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr3:191100400-191117400	Weak transcription	Fetal Stomach	stomach
24	chr3:191100400-191117400	Weak transcription	Lung	lung
25	chr3:191100400-191117800	Weak transcription	Small Intestine	intestine
26	chr3:191100400-191120000	Weak transcription	Spleen	Spleen
27	chr3:191100400-191121600	Weak transcription	Fetal Brain Female	brain
28	chr3:191100800-191115400	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr3:191101000-191115600	Weak transcription	Fetal Kidney	kidney
30	chr3:191101000-191117600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr3:191101200-191113600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr3:191101200-191114200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
33	chr3:191101200-191115200	Weak transcription	Fetal Heart	heart
34	chr3:191101200-191115600	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr3:191101200-191115800	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr3:191101200-191117000	Strong transcription	Primary B cells from peripheral blood	blood
37	chr3:191102200-191117600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr3:191102800-191113400	Weak transcription	Duodenum Mucosa	Duodenum
39	chr3:191103200-191119400	Weak transcription	HSMMtube	muscle
40	chr3:191104800-191116600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr3:191105000-191114400	Strong transcription	Primary B cells from cord blood	blood
42	chr3:191106800-191117200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr3:191107000-191114000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr3:191107200-191114400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr3:191107200-191114400	Strong transcription	GM12878-XiMat	blood
46	chr3:191107200-191114600	Strong transcription	HUVEC	blood vessel
47	chr3:191107400-191117200	Weak transcription	HepG2	liver
48	chr3:191108000-191117400	Weak transcription	NHEK	skin
49	chr3:191108600-191113600	Weak transcription	Left Ventricle	heart
50	chr3:191108600-191118000	Weak transcription	Rectal Mucosa Donor 31	rectum

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