Variant report

Variant	rs6493902
Chromosome Location	chr15:57444877-57444878
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:57438911..57440950-chr15:57443234..57446216,2	K562	blood:

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs1020888	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10467927	0.89[YRI][hapmap]
rs11856411	0.92[YRI][hapmap]
rs13379847	0.96[YRI][hapmap]
rs1430820	0.89[YRI][hapmap]
rs1430821	1.00[JPT][hapmap]
rs1430822	0.89[YRI][hapmap]
rs1542508	1.00[JPT][hapmap]
rs1642932	1.00[TSI][hapmap]
rs1652736	1.00[JPT][hapmap]
rs16977246	1.00[JPT][hapmap]
rs16977269	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1841692	1.00[JPT][hapmap]
rs2011551	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs213146	1.00[JPT][hapmap]
rs2464429	0.96[YRI][hapmap]
rs2464430	0.96[YRI][hapmap]
rs2470079	0.93[YRI][hapmap]
rs2470082	0.85[LWK][hapmap];0.96[YRI][hapmap]
rs2566843	1.00[JPT][hapmap]
rs2585084	1.00[JPT][hapmap]
rs2585118	1.00[JPT][hapmap]
rs2593230	1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs2593246	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2615233	1.00[JPT][hapmap]
rs2615243	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2703576	1.00[YRI][hapmap]
rs2703587	1.00[JPT][hapmap]
rs2703589	1.00[JPT][hapmap]
rs2703620	1.00[JPT][hapmap]
rs2733188	1.00[YRI][hapmap]
rs2733194	1.00[JPT][hapmap];1.00[TSI][hapmap]
rs2733195	1.00[JPT][hapmap]
rs2733332	0.83[YRI][hapmap]
rs2733339	1.00[JPT][hapmap]
rs2920267	1.00[YRI][hapmap]
rs2951899	0.85[LWK][hapmap];1.00[YRI][hapmap]
rs2951903	1.00[YRI][hapmap]
rs2951904	0.84[LWK][hapmap];1.00[YRI][hapmap]
rs2962991	0.96[YRI][hapmap]
rs2962992	0.84[LWK][hapmap];0.86[YRI][hapmap]
rs4494480	1.00[TSI][hapmap]
rs4774911	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4774912	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55702628	0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59239112	1.00[ASN][1000 genomes]
rs59799036	0.91[ASN][1000 genomes]
rs6493904	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs7161894	1.00[JPT][hapmap]
rs7162194	0.92[YRI][hapmap]
rs7163267	0.96[YRI][hapmap]
rs7164557	1.00[JPT][hapmap]
rs7171304	0.90[YRI][hapmap]
rs7175436	0.93[YRI][hapmap]
rs7176873	0.92[YRI][hapmap]
rs7178833	0.89[YRI][hapmap]
rs7180911	1.00[JPT][hapmap]
rs73415456	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8025829	1.00[JPT][hapmap]
rs8034066	1.00[YRI][hapmap]
rs8037469	1.00[JPT][hapmap];1.00[TSI][hapmap]
rs8039899	0.92[YRI][hapmap]
rs8040557	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs9806170	0.96[YRI][hapmap]
rs9806199	0.96[YRI][hapmap]

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	nsv1042486	chr15:57094598-57505992	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv904251	chr15:57241970-57575916	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57439000-57463400	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr15:57439400-57456000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr15:57439400-57491600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr15:57440800-57450400	Weak transcription	Aorta	Aorta
5	chr15:57441200-57448600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr15:57441200-57450800	Weak transcription	Esophagus	oesophagus
7	chr15:57441600-57445400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr15:57441600-57447600	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr15:57442200-57445000	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr15:57442200-57446800	ZNF genes & repeats	GM12878-XiMat	blood
11	chr15:57442400-57445600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr15:57442400-57446600	Weak transcription	Fetal Heart	heart
13	chr15:57442400-57448000	Weak transcription	Rectal Smooth Muscle	rectum
14	chr15:57442400-57450400	Weak transcription	Ovary	ovary
15	chr15:57442600-57446400	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr15:57442600-57447200	Weak transcription	Brain Anterior Caudate	brain
17	chr15:57442600-57450600	Weak transcription	Gastric	stomach
18	chr15:57442800-57447800	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr15:57442800-57448200	Weak transcription	Brain Substantia Nigra	brain
20	chr15:57443000-57445200	ZNF genes & repeats	Fetal Intestine Large	intestine
21	chr15:57443200-57445000	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
22	chr15:57443200-57445200	ZNF genes & repeats	Fetal Muscle Leg	muscle
23	chr15:57443200-57445600	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
24	chr15:57443200-57446600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr15:57443200-57447800	Weak transcription	Fetal Brain Male	brain
26	chr15:57443400-57445400	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
27	chr15:57443400-57445600	ZNF genes & repeats	Primary B cells from peripheral blood	blood
28	chr15:57443600-57445200	ZNF genes & repeats	Primary B cells from cord blood	blood
29	chr15:57443600-57445400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr15:57443600-57445600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr15:57443600-57445600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr15:57443600-57445600	ZNF genes & repeats	A549	lung
33	chr15:57443800-57445200	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr15:57444000-57445000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
35	chr15:57444000-57445000	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
36	chr15:57444000-57445000	ZNF genes & repeats	Primary T cells from cord blood	blood
37	chr15:57444000-57445000	ZNF genes & repeats	Fetal Kidney	kidney
38	chr15:57444000-57445200	ZNF genes & repeats	Primary T helper naive cells from peripheral blood	blood
39	chr15:57444000-57445200	ZNF genes & repeats	Brain Hippocampus Middle	brain
40	chr15:57444200-57445200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr15:57444200-57456600	Strong transcription	Fetal Thymus	thymus
42	chr15:57444400-57445200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr15:57444400-57445200	Enhancers	HUVEC	blood vessel
44	chr15:57444400-57446000	Weak transcription	Right Atrium	heart
45	chr15:57444400-57448600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr15:57444400-57449800	Weak transcription	Left Ventricle	heart
47	chr15:57444400-57450400	Weak transcription	Thymus	Thymus
48	chr15:57444400-57450800	Weak transcription	Fetal Stomach	stomach
49	chr15:57444400-57459000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr15:57444400-57459200	Weak transcription	Sigmoid Colon	Sigmoid Colon

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