Variant report

Variant	rs17016255
Chromosome Location	chr4:90744328-90744329
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10002435	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10014396	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10018362	0.98[ASN][1000 genomes]
rs10433953	0.87[AFR][1000 genomes]
rs1442137	1.00[CEU][hapmap];0.81[CHB][hapmap]
rs17016168	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17016183	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17016190	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2035268	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34410265	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34506386	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs34634504	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34699553	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3756055	1.00[CEU][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3756056	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3756057	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3775426	0.92[ASN][1000 genomes]
rs3775427	0.83[YRI][hapmap]
rs3775443	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3775446	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3775447	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3775448	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3775458	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3775461	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3796661	0.83[YRI][hapmap]
rs3889916	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3889917	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3906824	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56270968	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59398886	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60642683	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61027512	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62306329	0.84[EUR][1000 genomes]
rs6829514	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7665887	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7684637	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7684892	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7689942	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]

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	esv2830400	chr4:90085456-90922432	Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv1012406	chr4:90167781-91166787	Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv949454	chr4:90272120-91156917	Flanking Bivalent TSS/Enh Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv879536	chr4:90678541-90775212	Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS 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:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:90718800-90748000	Weak transcription	Brain Angular Gyrus	brain
2	chr4:90719000-90747600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr4:90722200-90751800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr4:90730200-90757200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr4:90730800-90757000	Weak transcription	Fetal Stomach	stomach
6	chr4:90734800-90750600	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr4:90735400-90749600	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr4:90735800-90755600	Weak transcription	Fetal Brain Male	brain
9	chr4:90736200-90750600	Weak transcription	Fetal Thymus	thymus
10	chr4:90738000-90750800	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr4:90738000-90755800	Weak transcription	Fetal Brain Female	brain
12	chr4:90738200-90750400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr4:90738200-90750800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr4:90738400-90745400	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr4:90738400-90750400	Weak transcription	Brain Anterior Caudate	brain
16	chr4:90738400-90750600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr4:90738400-90756600	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr4:90739600-90744400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
19	chr4:90739600-90750600	Weak transcription	Brain Hippocampus Middle	brain
20	chr4:90740000-90750600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr4:90740600-90750400	Weak transcription	Brain Cingulate Gyrus	brain
22	chr4:90742000-90744800	Weak transcription	Brain Germinal Matrix	brain
23	chr4:90742000-90750600	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr4:90742400-90744400	Weak transcription	Fetal Heart	heart
25	chr4:90742600-90744400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr4:90742800-90750200	Weak transcription	Primary monocytes fromperipheralblood	blood
27	chr4:90742800-90750400	Weak transcription	HMEC	breast
28	chr4:90742800-90752200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr4:90743200-90750200	Weak transcription	Monocytes-CD14+_RO01746	blood
30	chr4:90743400-90753400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr4:90743400-90756600	Weak transcription	NHEK	skin
32	chr4:90743400-90757400	Weak transcription	Gastric	stomach
33	chr4:90743600-90744600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr4:90743600-90750400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr4:90743600-90754600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr4:90743800-90747000	Weak transcription	HUVEC	blood vessel
37	chr4:90743800-90747200	Weak transcription	Dnd41	blood
38	chr4:90743800-90750400	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr4:90743800-90756600	Weak transcription	Ovary	ovary
40	chr4:90744000-90750200	Weak transcription	Primary hematopoietic stem cells	blood
41	chr4:90744000-90750600	Weak transcription	Fetal Lung	lung
42	chr4:90744200-90747200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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