Variant report

Variant	rs553238
Chromosome Location	chr15:73603271-73603272
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs11072404	0.82[CEU][hapmap];0.90[EUR][1000 genomes]
rs1320241	0.82[CEU][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1479336	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs1620369	0.82[CEU][hapmap];0.90[EUR][1000 genomes]
rs1621216	0.85[CEU][hapmap];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1631796	0.85[CEU][hapmap];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1678246	0.85[CEU][hapmap];0.88[EUR][1000 genomes]
rs1678247	0.85[CEU][hapmap];0.93[EUR][1000 genomes]
rs16957640	0.82[CEU][hapmap]
rs1871387	0.85[CEU][hapmap];0.93[EUR][1000 genomes]
rs1960423	0.88[ASN][1000 genomes]
rs2619257	0.85[CEU][hapmap];0.90[EUR][1000 genomes]
rs2619258	0.90[EUR][1000 genomes]
rs2623989	0.88[EUR][1000 genomes]
rs2623991	0.82[CEU][hapmap];0.88[EUR][1000 genomes]
rs2623992	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2623995	0.87[ASN][1000 genomes]
rs2623999	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2624000	0.82[EUR][1000 genomes]
rs2660822	0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2660825	0.85[CEU][hapmap];0.90[EUR][1000 genomes]
rs2660828	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs2680336	0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2680337	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2680342	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2680345	0.85[CEU][hapmap];0.90[EUR][1000 genomes]
rs2680346	0.82[CEU][hapmap];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4564531	0.85[CEU][hapmap];0.90[EUR][1000 genomes]
rs4570800	0.82[CEU][hapmap];0.90[EUR][1000 genomes]
rs471192	0.82[CEU][hapmap];0.93[EUR][1000 genomes]
rs4776627	0.90[EUR][1000 genomes]
rs4776629	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs481579	0.95[EUR][1000 genomes]
rs484515	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs484544	0.85[CEU][hapmap];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs489873	0.82[CEU][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs494493	0.82[CEU][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs497539	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs499098	0.82[CEU][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs513744	0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs525587	0.85[CEU][hapmap];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs529004	0.82[CEU][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs542259	0.85[CEU][hapmap];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs549377	0.95[EUR][1000 genomes]
rs55787640	0.83[EUR][1000 genomes]
rs561929	0.85[CEU][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6495056	0.82[CEU][hapmap]
rs68053508	0.88[EUR][1000 genomes]
rs7163504	0.82[CEU][hapmap]
rs7170328	0.85[CEU][hapmap]
rs7177629	0.85[CEU][hapmap]
rs8037761	0.82[CEU][hapmap];0.93[EUR][1000 genomes]
rs8039308	0.86[EUR][1000 genomes]
rs9806271	0.85[CEU][hapmap];0.90[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904343	chr15:73396760-73775043	Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73595400-73603800	Weak transcription	Spleen	Spleen
2	chr15:73595600-73610200	Weak transcription	Fetal Brain Male	brain
3	chr15:73596400-73611000	Weak transcription	Brain Anterior Caudate	brain
4	chr15:73596600-73610000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr15:73596600-73610200	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr15:73596800-73609600	Weak transcription	Fetal Lung	lung
7	chr15:73596800-73616800	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr15:73597000-73606000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr15:73597000-73609600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr15:73597000-73610000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr15:73597200-73603600	Weak transcription	Fetal Muscle Leg	muscle
12	chr15:73598000-73610400	Weak transcription	Brain Germinal Matrix	brain
13	chr15:73598200-73622800	Weak transcription	Right Atrium	heart
14	chr15:73598600-73610800	Weak transcription	Brain Cingulate Gyrus	brain
15	chr15:73598800-73607400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr15:73598800-73610800	Weak transcription	Brain Hippocampus Middle	brain
17	chr15:73598800-73620000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr15:73599600-73610800	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr15:73600000-73604400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr15:73600600-73611600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr15:73600800-73603800	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr15:73600800-73604200	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr15:73600800-73606000	Weak transcription	Pancreas	Pancrea
24	chr15:73600800-73610800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr15:73601000-73617800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr15:73601400-73604000	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr15:73601400-73608800	Weak transcription	Fetal Intestine Large	intestine
28	chr15:73601400-73610000	Weak transcription	Fetal Stomach	stomach
29	chr15:73601400-73611800	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr15:73601600-73604600	Weak transcription	Stomach Smooth Muscle	stomach
31	chr15:73601600-73610400	Weak transcription	Fetal Brain Female	brain
32	chr15:73601600-73615600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr15:73601800-73603600	Weak transcription	Fetal Intestine Small	intestine
34	chr15:73601800-73605400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr15:73602000-73610000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr15:73602000-73611000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
37	chr15:73602000-73611400	Weak transcription	Aorta	Aorta

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