Variant report

Variant	rs9548829
Chromosome Location	chr13:40146053-40146054
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1885759	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2324337	0.96[CEU][hapmap];0.85[JPT][hapmap];0.91[EUR][1000 genomes]
rs35396912	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35801450	0.81[AMR][1000 genomes]
rs7322336	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7333056	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7981547	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7982917	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.87[YRI][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9315701	0.96[CEU][hapmap];0.84[JPT][hapmap];0.91[EUR][1000 genomes]
rs9315702	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.87[YRI][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9315703	0.92[CEU][hapmap];0.84[JPT][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9315706	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9315707	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs9532396	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9532399	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9548800	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs9548804	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9548805	0.92[CEU][hapmap];0.83[JPT][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9548809	0.92[CEU][hapmap];0.84[JPT][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9548817	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9548819	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9548820	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9548821	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9548822	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9548824	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9548825	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9548826	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9548827	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9548830	1.00[CEU][hapmap]
rs9548831	0.82[AMR][1000 genomes]
rs9548836	0.86[CHB][hapmap]
rs9603564	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2754118	chr13:39347702-40222644	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1054600	chr13:39801283-40545027	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 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	chr13:40129000-40152800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr13:40138800-40152800	Weak transcription	Aorta	Aorta
3	chr13:40139200-40158000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr13:40139800-40146400	Weak transcription	Brain Substantia Nigra	brain
5	chr13:40140000-40169400	Weak transcription	Fetal Stomach	stomach
6	chr13:40140200-40149600	Weak transcription	Fetal Muscle Leg	muscle
7	chr13:40140400-40157800	Weak transcription	Adipose Nuclei	Adipose
8	chr13:40140600-40146600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr13:40140600-40148600	Weak transcription	Fetal Lung	lung
10	chr13:40140800-40152800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr13:40140800-40165400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr13:40142000-40148800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr13:40142000-40156200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr13:40142000-40156200	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr13:40142000-40169400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr13:40142000-40169400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr13:40142200-40150000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr13:40142200-40152600	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr13:40143000-40149400	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr13:40143000-40158200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr13:40143200-40157800	Weak transcription	NHDF-Ad	bronchial
22	chr13:40143200-40161800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr13:40143200-40170800	Weak transcription	Osteobl	bone
24	chr13:40144400-40147200	Enhancers	Fetal Heart	heart
25	chr13:40144800-40146400	Enhancers	Left Ventricle	heart
26	chr13:40145400-40146200	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
27	chr13:40145400-40146400	Enhancers	Right Atrium	heart
28	chr13:40145600-40146200	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr13:40145600-40146200	Enhancers	Fetal Muscle Trunk	muscle
30	chr13:40145600-40146200	Enhancers	Lung	lung
31	chr13:40145600-40146800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr13:40145600-40153200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr13:40145800-40146200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr13:40145800-40146200	Enhancers	Ovary	ovary
35	chr13:40145800-40146200	Flanking Active TSS	Right Ventricle	heart
36	chr13:40145800-40146400	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr13:40146000-40146200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr13:40146000-40146800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
39	chr13:40146000-40149800	Weak transcription	H1 Cell Line	embryonic stem cell
40	chr13:40146000-40152800	Weak transcription	NHLF	lung
41	chr13:40146000-40155400	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr13:40146000-40171800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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