Variant report

Variant	rs13140373
Chromosome Location	chr4:110439337-110439338
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs10000545	0.86[CEU][hapmap]
rs10002595	0.86[CEU][hapmap]
rs10016533	0.93[CEU][hapmap];1.00[GIH][hapmap];0.83[TSI][hapmap];0.90[EUR][1000 genomes]
rs10025781	0.87[EUR][1000 genomes]
rs10155127	0.86[CEU][hapmap]
rs10213562	0.95[GIH][hapmap]
rs10452150	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10516558	0.93[CEU][hapmap]
rs11929713	0.81[CEU][hapmap];1.00[MEX][hapmap]
rs11930655	0.85[CEU][hapmap]
rs11942291	0.86[CEU][hapmap]
rs11942858	0.93[CEU][hapmap];1.00[MEX][hapmap]
rs12643055	0.86[CEU][hapmap]
rs12648965	0.86[CEU][hapmap]
rs13103034	0.93[CEU][hapmap];1.00[MEX][hapmap]
rs13110999	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs13122093	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13123618	0.86[CEU][hapmap]
rs13128221	0.93[CEU][hapmap]
rs13132816	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13133491	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13142698	0.85[CEU][hapmap]
rs13143825	0.93[CEU][hapmap]
rs13145066	0.93[CEU][hapmap];1.00[MEX][hapmap]
rs13147210	0.80[EUR][1000 genomes]
rs13151464	0.93[EUR][1000 genomes]
rs13151516	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1509314	0.86[CEU][hapmap]
rs1509315	0.93[CEU][hapmap]
rs15821	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17040436	0.93[CEU][hapmap];1.00[MEX][hapmap]
rs17040439	0.93[CEU][hapmap];1.00[MEX][hapmap]
rs17040461	0.93[CEU][hapmap];1.00[MEX][hapmap]
rs17040510	0.80[CEU][hapmap]
rs28681408	0.86[CEU][hapmap]
rs33911248	0.93[EUR][1000 genomes]
rs34132975	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34133579	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34320670	0.84[EUR][1000 genomes]
rs34368920	0.85[EUR][1000 genomes]
rs34473874	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34502105	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34660885	0.93[EUR][1000 genomes]
rs34710885	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34727629	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34813537	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34851707	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34861128	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34953524	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35199349	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35313553	0.93[EUR][1000 genomes]
rs35329136	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35450490	0.93[EUR][1000 genomes]
rs35598950	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35699695	0.93[EUR][1000 genomes]
rs35865655	0.87[EUR][1000 genomes]
rs35866656	0.93[EUR][1000 genomes]
rs35950484	0.93[EUR][1000 genomes]
rs36102563	0.93[EUR][1000 genomes]
rs41277037	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6533434	0.85[CEU][hapmap];1.00[GIH][hapmap];0.85[EUR][1000 genomes]
rs66493839	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67066117	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs67727505	0.89[EUR][1000 genomes]
rs67923759	0.93[EUR][1000 genomes]
rs6825928	0.86[MEX][hapmap]
rs6828719	0.87[EUR][1000 genomes]
rs6834685	0.85[EUR][1000 genomes]
rs6835683	0.86[CEU][hapmap]
rs6841198	0.86[CEU][hapmap]
rs6856291	0.93[CEU][hapmap]
rs71603034	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs71603035	0.87[EUR][1000 genomes]
rs72672698	0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7436583	0.86[CEU][hapmap]
rs7440570	0.86[CEU][hapmap]
rs7675602	0.86[CEU][hapmap]
rs7694710	0.86[EUR][1000 genomes]
rs9985632	0.86[CEU][hapmap]
rs9994676	0.80[CEU][hapmap]
rs9999570	0.86[CEU][hapmap]

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	nsv461613	chr4:109922064-110593460	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv595129	chr4:109922064-110593460	Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	esv3349784	chr4:110348873-110723163	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv525385	chr4:110395146-110466413	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110393800-110469200	Weak transcription	Stomach Mucosa	stomach
2	chr4:110400200-110455400	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr4:110409400-110467800	Strong transcription	Monocytes-CD14+_RO01746	blood
4	chr4:110411400-110464600	Strong transcription	Primary monocytes fromperipheralblood	blood
5	chr4:110412400-110443000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr4:110412400-110444600	Strong transcription	Primary T cells fromperipheralblood	blood
7	chr4:110412400-110465400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr4:110412400-110466200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr4:110412400-110470600	Strong transcription	Fetal Thymus	thymus
10	chr4:110413400-110454800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr4:110416200-110454800	Weak transcription	Fetal Heart	heart
12	chr4:110416400-110452200	Weak transcription	Fetal Brain Male	brain
13	chr4:110416800-110449200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr4:110417000-110440000	Weak transcription	Pancreas	Pancrea
15	chr4:110417000-110441800	Weak transcription	Right Ventricle	heart
16	chr4:110417000-110447400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr4:110417000-110448400	Weak transcription	Spleen	Spleen
18	chr4:110417000-110449200	Weak transcription	Hela-S3	cervix
19	chr4:110417000-110453400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr4:110417000-110453600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr4:110417000-110455800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr4:110417200-110441800	Weak transcription	Esophagus	oesophagus
23	chr4:110417200-110448400	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr4:110417800-110447400	Weak transcription	NHLF	lung
25	chr4:110418400-110448600	Weak transcription	Psoas Muscle	Psoas
26	chr4:110419000-110447400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr4:110420200-110466400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr4:110420400-110443600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr4:110420800-110441400	Weak transcription	Colonic Mucosa	Colon
30	chr4:110422400-110448600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr4:110422800-110448400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr4:110422800-110448600	Weak transcription	Placenta Amnion	Placenta Amnion
33	chr4:110423400-110454400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr4:110423400-110480800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr4:110424600-110444400	Strong transcription	Primary T helper cells fromperipheralblood	blood
36	chr4:110424600-110457000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr4:110424800-110456000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr4:110424800-110456600	Strong transcription	Osteobl	bone
39	chr4:110424800-110468400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr4:110425000-110463800	Strong transcription	HUES64 Cell Line	embryonic stem cell
41	chr4:110425200-110468000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr4:110425400-110464800	Strong transcription	Duodenum Mucosa	Duodenum
43	chr4:110426200-110449000	Weak transcription	A549	lung
44	chr4:110426200-110453800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
45	chr4:110426400-110444400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr4:110426600-110456800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr4:110427200-110454800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr4:110427400-110444600	Strong transcription	Primary neutrophils fromperipheralblood	blood
49	chr4:110427400-110464800	Strong transcription	Primary B cells from peripheral blood	blood
50	chr4:110427600-110444400	Strong transcription	Adipose Nuclei	Adipose

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