Variant report

Variant	rs34392886
Chromosome Location	chr4:111006657-111006658
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10005776	0.92[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10024683	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1003908	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11731407	0.96[CEU][hapmap];0.86[GIH][hapmap];0.95[TSI][hapmap];0.95[EUR][1000 genomes]
rs2005701	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2040710	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2347600	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2347601	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2347602	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28694077	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28706838	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28712862	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28784911	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4698807	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6858635	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6858695	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869392	chr4:110945459-111235071	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats 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 target site	22 gene(s)	inside rSNPs	diseases
2	nsv437412	chr4:110995217-111006785	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
3	nsv437414	chr4:110995217-111006785	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
4	esv3341709	chr4:111004303-111006876	Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv2762456	chr4:111006438-111007372	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110973000-111009200	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr4:110981400-111009200	Weak transcription	Primary hematopoietic stem cells	blood
3	chr4:110986200-111009400	Weak transcription	NHLF	lung
4	chr4:110991800-111008400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr4:110992400-111010000	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr4:110993200-111015400	Weak transcription	Psoas Muscle	Psoas
7	chr4:110995000-111018600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr4:110995200-111008600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr4:110998200-111007800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr4:111004400-111009600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr4:111004400-111009600	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr4:111004600-111007000	Weak transcription	Brain Germinal Matrix	brain
13	chr4:111004600-111026000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr4:111004600-111027800	Weak transcription	Esophagus	oesophagus
15	chr4:111004800-111009800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr4:111005800-111006800	Enhancers	Primary T cells fromperipheralblood	blood
17	chr4:111005800-111006800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr4:111005800-111009000	Enhancers	Rectal Mucosa Donor 31	rectum
19	chr4:111006000-111006800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr4:111006000-111006800	Enhancers	Primary hematopoietic stem cells short term culture	blood
21	chr4:111006000-111006800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
22	chr4:111006000-111006800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
23	chr4:111006000-111006800	Enhancers	Fetal Heart	heart
24	chr4:111006000-111007000	Enhancers	Primary T helper naive cells from peripheral blood	blood
25	chr4:111006000-111007000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
26	chr4:111006000-111007000	Enhancers	Primary T helper cells PMA-I stimulated	--
27	chr4:111006000-111007000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
28	chr4:111006000-111007000	Enhancers	Primary T helper cells fromperipheralblood	blood
29	chr4:111006000-111007000	Enhancers	Primary T killer memory cells from peripheral blood	blood
30	chr4:111006000-111007000	Enhancers	Sigmoid Colon	Sigmoid Colon
31	chr4:111006000-111007200	Enhancers	HepG2	liver
32	chr4:111006000-111007400	Genic enhancers	K562	blood
33	chr4:111006000-111007600	Enhancers	Fetal Intestine Large	intestine
34	chr4:111006000-111007800	Enhancers	Stomach Mucosa	stomach
35	chr4:111006000-111008200	Enhancers	Rectal Mucosa Donor 29	rectum
36	chr4:111006000-111009600	Enhancers	Fetal Intestine Small	intestine
37	chr4:111006000-111010200	Enhancers	Small Intestine	intestine
38	chr4:111006000-111011400	Enhancers	Cortex derived primary cultured neurospheres	brain
39	chr4:111006000-111013200	Enhancers	Dnd41	blood
40	chr4:111006000-111014000	Enhancers	HMEC	breast
41	chr4:111006200-111006800	Enhancers	Primary B cells from peripheral blood	blood
42	chr4:111006200-111006800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr4:111006200-111006800	Enhancers	Adipose Nuclei	Adipose
44	chr4:111006200-111007000	Enhancers	Primary T cells from cord blood	blood
45	chr4:111006200-111007000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
46	chr4:111006200-111007000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr4:111006200-111007000	Enhancers	NH-A	brain
48	chr4:111006200-111007200	Enhancers	Left Ventricle	heart
49	chr4:111006200-111007800	Weak transcription	Brain Hippocampus Middle	brain
50	chr4:111006200-111009000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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