Variant report

Variant	rs1873825
Chromosome Location	chr9:72591055-72591056
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs1027283	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1027284	0.95[ASN][1000 genomes]
rs10735572	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10780718	0.98[ASN][1000 genomes]
rs10780720	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10780724	0.83[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs10868248	0.84[CHB][hapmap]
rs10868291	0.98[ASN][1000 genomes]
rs10868299	0.97[ASN][1000 genomes]
rs10868327	0.96[ASN][1000 genomes]
rs10868358	0.90[ASN][1000 genomes]
rs10868378	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1121607	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1121608	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1389125	0.96[ASN][1000 genomes]
rs1473520	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1493046	0.83[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1493047	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1542769	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1586914	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1907956	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1907959	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1976234	0.86[ASN][1000 genomes]
rs2035922	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2975859	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2975860	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2975926	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3015226	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4403478	0.90[ASN][1000 genomes]
rs4413835	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4418399	0.86[ASN][1000 genomes]
rs4445287	1.00[CEU][hapmap];0.95[JPT][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4487845	0.95[ASN][1000 genomes]
rs4490905	0.95[ASN][1000 genomes]
rs4574911	0.96[ASN][1000 genomes]
rs4636269	0.90[ASN][1000 genomes]
rs4744583	0.90[ASN][1000 genomes]
rs4744584	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4744959	0.83[ASN][1000 genomes]
rs60433205	0.97[EUR][1000 genomes]
rs6559854	0.87[ASN][1000 genomes]
rs7019025	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7023406	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7025044	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7029606	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7035415	0.95[ASN][1000 genomes]
rs7037671	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7847934	0.98[ASN][1000 genomes]
rs7863165	0.97[ASN][1000 genomes]
rs7863229	0.90[ASN][1000 genomes]
rs870011	0.95[ASN][1000 genomes]
rs902964	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs931500	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs953372	0.90[ASN][1000 genomes]
rs996375	0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893438	chr9:72363992-72720438	Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv831612	chr9:72473778-72634253	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1049457	chr9:72539144-72765913	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1035668	chr9:72555053-72632796	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv1051004	chr9:72557761-72632015	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv831613	chr9:72586058-72740061	Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1873825	ADAMTS1	trans	brain	seeQTL

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72587000-72596800	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr9:72589200-72591200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr9:72589600-72591200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr9:72589800-72592200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr9:72589800-72592200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr9:72590000-72591200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr9:72590000-72592400	Enhancers	NH-A	brain
8	chr9:72590200-72591600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr9:72590400-72592200	Enhancers	HUVEC	blood vessel
10	chr9:72590400-72592200	Enhancers	NHLF	lung
11	chr9:72590400-72592400	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr9:72590600-72591400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
13	chr9:72590600-72591400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr9:72590600-72591400	Enhancers	Fetal Muscle Leg	muscle
15	chr9:72590600-72591600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr9:72590600-72591800	Enhancers	NHDF-Ad	bronchial
17	chr9:72590600-72591800	Enhancers	Osteobl	bone
18	chr9:72590600-72592200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr9:72590600-72592200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr9:72590600-72592200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr9:72590600-72592200	Enhancers	HMEC	breast
22	chr9:72590600-72592200	Enhancers	NHEK	skin
23	chr9:72590800-72591200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr9:72590800-72591200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr9:72590800-72591200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
26	chr9:72590800-72591200	Enhancers	Psoas Muscle	Psoas
27	chr9:72590800-72591200	Flanking Active TSS	HSMM	muscle
28	chr9:72590800-72591200	Flanking Active TSS	HSMMtube	muscle
29	chr9:72590800-72591400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr9:72590800-72591400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr9:72590800-72591400	Enhancers	Duodenum Smooth Muscle	Duodenum
32	chr9:72590800-72591400	Enhancers	A549	lung
33	chr9:72590800-72591400	Enhancers	Hela-S3	cervix
34	chr9:72590800-72591600	Enhancers	ES-I3 Cell Line	embryonic stem cell
35	chr9:72590800-72592200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr9:72590800-72592200	Enhancers	Skeletal Muscle Female	skeletal muscle
37	chr9:72591000-72591200	Enhancers	H9 Cell Line	embryonic stem cell
38	chr9:72591000-72591200	Enhancers	Esophagus	oesophagus
39	chr9:72591000-72591400	Enhancers	Cortex derived primary cultured neurospheres	brain
40	chr9:72591000-72591400	Enhancers	Colon Smooth Muscle	Colon
41	chr9:72591000-72591400	Enhancers	Right Ventricle	heart

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