Variant report

Variant	rs1052591
Chromosome Location	chr1:168698173-168698174
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DPT-2	chr1:168697902-168698184	l_146_chr1:168697901-168753457_adipose

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs1018453	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1018454	0.83[ASN][1000 genomes]
rs12563398	0.89[ASN][1000 genomes]
rs12567476	0.85[ASN][1000 genomes]
rs12568207	0.89[ASN][1000 genomes]
rs12724380	0.88[ASN][1000 genomes]
rs12728858	0.89[ASN][1000 genomes]
rs12731369	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12735097	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12742262	0.89[ASN][1000 genomes]
rs12748557	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12755391	0.89[ASN][1000 genomes]
rs1555206	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1556790	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1556791	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1556792	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1556793	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17569416	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1765516	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1765517	0.84[ASN][1000 genomes]
rs1989300	0.89[ASN][1000 genomes]
rs2206288	0.89[ASN][1000 genomes]
rs2206289	0.89[ASN][1000 genomes]
rs2206290	0.89[ASN][1000 genomes]
rs2223478	0.89[ASN][1000 genomes]
rs2744658	0.84[CHD][hapmap];1.00[JPT][hapmap];0.80[TSI][hapmap]
rs2744659	0.89[ASN][1000 genomes]
rs2744661	0.89[ASN][1000 genomes]
rs2786759	0.83[CHB][hapmap]
rs2786760	0.86[ASN][1000 genomes]
rs472668	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs484025	0.89[ASN][1000 genomes]
rs485109	0.89[ASN][1000 genomes]
rs485855	0.89[ASN][1000 genomes]
rs489585	0.89[ASN][1000 genomes]
rs525275	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs534139	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs538714	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs542198	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs552859	0.91[CHB][hapmap]
rs555676	0.89[ASN][1000 genomes]
rs609629	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs610403	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs623949	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs625712	0.89[ASN][1000 genomes]
rs627872	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs628718	0.83[CHB][hapmap];0.83[CHD][hapmap];0.83[ASN][1000 genomes]
rs6427148	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs6427149	0.88[ASN][1000 genomes]
rs655128	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs656919	0.89[ASN][1000 genomes]
rs6656646	0.89[ASN][1000 genomes]
rs6666079	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6678818	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6693709	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6697889	0.89[ASN][1000 genomes]
rs6701299	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs672950	0.89[ASN][1000 genomes]
rs686610	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs731949	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.90[MKK][hapmap];0.95[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs734123	0.89[ASN][1000 genomes]
rs7534485	0.89[ASN][1000 genomes]
rs760912	0.89[ASN][1000 genomes]
rs760913	0.89[ASN][1000 genomes]
rs761519	0.88[CEU][hapmap];0.91[CHB][hapmap];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs763433	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869415	chr1:168467284-169153863	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
2	nsv831836	chr1:168538779-168716956	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv831847	chr1:168669877-168850129	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:168692600-168698200	Weak transcription	Psoas Muscle	Psoas
2	chr1:168694000-168698600	Active TSS	Rectal Smooth Muscle	rectum
3	chr1:168694600-168698800	Active TSS	Stomach Smooth Muscle	stomach
4	chr1:168694800-168699000	Active TSS	Duodenum Smooth Muscle	Duodenum
5	chr1:168695000-168698800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr1:168695600-168698400	Active TSS	Colon Smooth Muscle	Colon
7	chr1:168695600-168698400	Active TSS	Right Ventricle	heart
8	chr1:168695800-168698200	Active TSS	Right Atrium	heart
9	chr1:168696000-168701000	Weak transcription	Fetal Heart	heart
10	chr1:168696200-168698400	Active TSS	Fetal Intestine Small	intestine
11	chr1:168696200-168698400	Weak transcription	Fetal Lung	lung
12	chr1:168696200-168698400	Active TSS	Left Ventricle	heart
13	chr1:168697000-168699200	Flanking Active TSS	Adipose Nuclei	Adipose
14	chr1:168697200-168698400	Active TSS	Fetal Intestine Large	intestine
15	chr1:168697200-168698400	Active TSS	Rectal Mucosa Donor 29	rectum
16	chr1:168697400-168700200	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr1:168697600-168698400	Enhancers	Ovary	ovary
18	chr1:168697600-168698400	Active TSS	Rectal Mucosa Donor 31	rectum
19	chr1:168697600-168699200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr1:168697800-168698200	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr1:168697800-168698200	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr1:168697800-168698400	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr1:168697800-168698400	Active TSS	Aorta	Aorta
24	chr1:168697800-168698400	Active TSS	Colonic Mucosa	Colon
25	chr1:168697800-168698400	Active TSS	Duodenum Mucosa	Duodenum
26	chr1:168697800-168698400	Flanking Active TSS	Fetal Muscle Trunk	muscle
27	chr1:168697800-168698400	Flanking Active TSS	Fetal Muscle Leg	muscle
28	chr1:168697800-168698400	Flanking Active TSS	Fetal Stomach	stomach
29	chr1:168697800-168698400	Flanking Active TSS	NHLF	lung
30	chr1:168697800-168698800	Flanking Active TSS	NHDF-Ad	bronchial
31	chr1:168697800-168699200	Enhancers	Placenta	Placenta
32	chr1:168698000-168698600	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
33	chr1:168698000-168698600	Flanking Bivalent TSS/Enh	Osteobl	bone
34	chr1:168698000-168698800	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
35	chr1:168698000-168699000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr1:168698000-168699200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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