Variant report

Variant	rs35190829
Chromosome Location	chr4:85802329-85802330
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10856851	0.81[EUR][1000 genomes]
rs10856852	0.81[CEU][hapmap];0.86[JPT][hapmap];0.81[TSI][hapmap]
rs11097026	0.90[CEU][hapmap];0.83[EUR][1000 genomes]
rs11097028	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12500519	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12501525	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12502294	0.81[EUR][1000 genomes]
rs12502409	0.86[EUR][1000 genomes]
rs12502559	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12503330	0.83[EUR][1000 genomes]
rs13114115	0.80[EUR][1000 genomes]
rs13118671	1.00[CEU][hapmap];0.97[GIH][hapmap];0.86[JPT][hapmap];0.97[TSI][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13125323	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13139541	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13141072	0.82[EUR][1000 genomes]
rs1484661	0.90[CEU][hapmap];0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1508670	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16995920	0.81[EUR][1000 genomes]
rs17009317	1.00[CEU][hapmap];0.97[GIH][hapmap];0.86[JPT][hapmap];0.97[TSI][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17009334	1.00[CEU][hapmap];0.95[JPT][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17009341	0.90[CEU][hapmap];0.83[CHD][hapmap];0.91[JPT][hapmap];0.85[TSI][hapmap]
rs2046404	0.90[CEU][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes]
rs35892581	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3747680	0.90[CEU][hapmap];0.86[JPT][hapmap]
rs4131745	0.80[EUR][1000 genomes]
rs4383611	0.85[CEU][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.95[TSI][hapmap];0.88[EUR][1000 genomes]
rs4533765	0.86[JPT][hapmap];0.81[TSI][hapmap]
rs4590017	0.90[CEU][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.95[TSI][hapmap];0.88[EUR][1000 genomes]
rs55871210	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs55912355	0.84[EUR][1000 genomes]
rs56094216	0.84[EUR][1000 genomes]
rs58074983	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6531777	0.90[CEU][hapmap];0.83[CHD][hapmap];0.91[JPT][hapmap];0.85[TSI][hapmap]
rs6531782	0.81[CEU][hapmap];0.86[JPT][hapmap];0.81[TSI][hapmap]
rs6531783	0.89[CEU][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes]
rs66965560	0.81[EUR][1000 genomes]
rs67624868	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6815917	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6816534	0.82[EUR][1000 genomes]
rs6820517	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6825852	0.90[CEU][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes]
rs6829807	0.95[CEU][hapmap];0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6838727	0.90[CEU][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes]
rs6847564	0.94[CEU][hapmap];0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs71631375	0.86[EUR][1000 genomes]
rs72664928	0.91[EUR][1000 genomes]
rs72664957	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7654035	0.90[CEU][hapmap];0.91[JPT][hapmap]
rs7661609	0.90[CEU][hapmap];0.83[CHD][hapmap];0.91[JPT][hapmap];0.85[TSI][hapmap]
rs7663580	0.81[CEU][hapmap];0.86[JPT][hapmap];0.81[TSI][hapmap]
rs7682896	0.86[EUR][1000 genomes]
rs7690054	0.88[EUR][1000 genomes]
rs7692223	0.90[CEU][hapmap];0.95[JPT][hapmap];0.88[EUR][1000 genomes]
rs7694949	0.90[CEU][hapmap];0.83[CHD][hapmap];0.91[JPT][hapmap];0.85[TSI][hapmap]
rs7695054	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7699226	0.90[CEU][hapmap];0.83[CHD][hapmap];0.91[JPT][hapmap];0.85[TSI][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	esv1829655	chr4:85577491-86292692	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv427684	chr4:85668487-85863446	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv519588	chr4:85762385-86591202	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv879515	chr4:85789940-85843244	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:85723000-85821000	Weak transcription	Pancreas	Pancrea
2	chr4:85771200-85803200	Weak transcription	Brain Germinal Matrix	brain
3	chr4:85778000-85813800	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr4:85778000-85836600	Weak transcription	Rectal Smooth Muscle	rectum
5	chr4:85778800-85832800	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr4:85779800-85828800	Weak transcription	Spleen	Spleen
7	chr4:85781800-85802400	Weak transcription	Fetal Intestine Large	intestine
8	chr4:85781800-85808200	Weak transcription	Adipose Nuclei	Adipose
9	chr4:85781800-85848600	Weak transcription	Stomach Smooth Muscle	stomach
10	chr4:85782200-85810800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr4:85782200-85814800	Weak transcription	Fetal Intestine Small	intestine
12	chr4:85783400-85814200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr4:85783600-85826600	Weak transcription	Ovary	ovary
14	chr4:85791800-85808200	Weak transcription	Aorta	Aorta
15	chr4:85792000-85824400	Weak transcription	Fetal Muscle Leg	muscle
16	chr4:85792000-85825000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr4:85792000-85828600	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr4:85792400-85808400	Weak transcription	Fetal Heart	heart
19	chr4:85793200-85815600	Weak transcription	Fetal Muscle Trunk	muscle
20	chr4:85793600-85815400	Weak transcription	Fetal Stomach	stomach
21	chr4:85794400-85802800	Weak transcription	Fetal Lung	lung
22	chr4:85795000-85814200	Weak transcription	Fetal Kidney	kidney
23	chr4:85797600-85804000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr4:85798400-85833400	Weak transcription	Fetal Brain Female	brain
25	chr4:85798800-85802800	Weak transcription	Placenta	Placenta
26	chr4:85798800-85803200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr4:85798800-85815800	Weak transcription	Left Ventricle	heart
28	chr4:85798800-85823400	Weak transcription	Gastric	stomach
29	chr4:85798800-85824600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr4:85798800-85873200	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr4:85799600-85841600	Weak transcription	HMEC	breast
32	chr4:85800000-85822200	Weak transcription	Rectal Mucosa Donor 29	rectum
33	chr4:85800000-85824400	Weak transcription	NHEK	skin
34	chr4:85800200-85807800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr4:85800400-85802400	Weak transcription	Monocytes-CD14+_RO01746	blood
36	chr4:85800600-85803000	Weak transcription	Primary monocytes fromperipheralblood	blood
37	chr4:85800600-85808200	Weak transcription	NHLF	lung
38	chr4:85800800-85808000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr4:85800800-85808200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr4:85801200-85807600	Weak transcription	Brain Substantia Nigra	brain
41	chr4:85801200-85816600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr4:85801400-85803200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
43	chr4:85801400-85808200	Weak transcription	Brain Cingulate Gyrus	brain
44	chr4:85801400-85808400	Weak transcription	HUES64 Cell Line	embryonic stem cell
45	chr4:85801400-85808400	Weak transcription	Brain Anterior Caudate	brain
46	chr4:85801400-85808600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr4:85801400-85809800	Weak transcription	Brain Angular Gyrus	brain
48	chr4:85801400-85813600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr4:85801400-85814200	Weak transcription	HUES6 Cell Line	embryonic stem cell
50	chr4:85801400-85822000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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