Variant report

Variant	rs13292589
Chromosome Location	chr9:103249058-103249059
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 115 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:112)

rs_ID	r²[population]
rs1000477	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1041565	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10465118	0.88[ASN][1000 genomes]
rs10465145	0.88[ASN][1000 genomes]
rs10465147	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10465148	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10512270	0.95[ASN][1000 genomes]
rs10512271	1.00[ASN][1000 genomes]
rs10819774	0.88[ASN][1000 genomes]
rs10819775	0.88[ASN][1000 genomes]
rs10819776	0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs10819779	0.95[ASN][1000 genomes]
rs10819781	0.97[ASN][1000 genomes]
rs10819782	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10819785	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10819786	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10819787	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10819788	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10819789	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10819790	0.86[ASN][1000 genomes]
rs10989085	0.88[ASN][1000 genomes]
rs10989090	0.91[ASN][1000 genomes]
rs10989091	0.93[ASN][1000 genomes]
rs10989092	0.95[ASN][1000 genomes]
rs10989093	0.91[ASN][1000 genomes]
rs10989094	0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs10989095	0.95[ASN][1000 genomes]
rs10989097	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10989099	0.97[ASN][1000 genomes]
rs10989103	1.00[ASN][1000 genomes]
rs10989105	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10989107	1.00[ASN][1000 genomes]
rs10989108	1.00[ASN][1000 genomes]
rs10989111	1.00[ASN][1000 genomes]
rs10989112	1.00[ASN][1000 genomes]
rs10989113	1.00[ASN][1000 genomes]
rs10989114	1.00[ASN][1000 genomes]
rs10989115	1.00[ASN][1000 genomes]
rs10989120	1.00[ASN][1000 genomes]
rs10989121	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs10989123	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10989124	0.87[ASN][1000 genomes]
rs10989130	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10989131	0.87[ASN][1000 genomes]
rs10989134	0.86[ASN][1000 genomes]
rs10989135	0.86[ASN][1000 genomes]
rs10989142	0.86[ASN][1000 genomes]
rs10989143	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10989144	0.86[ASN][1000 genomes]
rs10989145	0.87[ASN][1000 genomes]
rs10989146	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10989151	0.85[ASN][1000 genomes]
rs10989152	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10989153	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10989156	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11793014	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12004257	0.98[ASN][1000 genomes]
rs12005378	0.84[ASN][1000 genomes]
rs12056981	0.97[ASN][1000 genomes]
rs12057047	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12235981	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12236071	0.97[ASN][1000 genomes]
rs12236952	1.00[ASN][1000 genomes]
rs12236970	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12237166	0.97[ASN][1000 genomes]
rs12237481	0.98[ASN][1000 genomes]
rs12238560	1.00[ASN][1000 genomes]
rs12682741	0.97[ASN][1000 genomes]
rs12683122	0.87[ASN][1000 genomes]
rs12683548	0.97[ASN][1000 genomes]
rs12684454	0.97[ASN][1000 genomes]
rs13286805	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16919136	1.00[ASN][1000 genomes]
rs16919174	0.85[ASN][1000 genomes]
rs1930237	0.87[ASN][1000 genomes]
rs1930245	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1930246	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1931140	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2026423	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2069236	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2151106	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2183989	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2183990	0.88[ASN][1000 genomes]
rs2183991	0.88[ASN][1000 genomes]
rs2274881	1.00[ASN][1000 genomes]
rs2274882	0.85[ASN][1000 genomes]
rs34471402	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34816846	0.86[EUR][1000 genomes]
rs56050588	0.82[ASN][1000 genomes]
rs56122790	0.88[ASN][1000 genomes]
rs56170030	1.00[ASN][1000 genomes]
rs59565932	0.87[ASN][1000 genomes]
rs59611728	0.99[ASN][1000 genomes]
rs59823190	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7021028	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7024666	0.97[ASN][1000 genomes]
rs7028822	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7029001	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7034154	0.97[ASN][1000 genomes]
rs7038306	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7041933	0.97[ASN][1000 genomes]
rs7042669	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7046659	0.97[ASN][1000 genomes]
rs7049241	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72735107	0.88[ASN][1000 genomes]
rs72735110	0.88[ASN][1000 genomes]
rs72735119	0.95[ASN][1000 genomes]
rs72735122	0.95[ASN][1000 genomes]
rs72735140	1.00[ASN][1000 genomes]
rs72735148	0.90[ASN][1000 genomes]
rs7850353	0.85[EUR][1000 genomes]
rs7869933	0.97[ASN][1000 genomes]

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	nsv893623	chr9:102648036-103405197	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv825012	chr9:103152205-103256281	Flanking Active TSS Active TSS Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv614955	chr9:103181596-103261227	ZNF genes & repeats Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:103237000-103251600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:103238200-103251600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr9:103238200-103252000	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr9:103238200-103264200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr9:103238200-103274600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr9:103238400-103251400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr9:103238400-103251400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr9:103238400-103251800	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr9:103238600-103251800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr9:103245200-103251600	Weak transcription	Brain Substantia Nigra	brain
11	chr9:103245400-103251400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr9:103247800-103253800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr9:103248000-103252000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr9:103248200-103251600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr9:103249000-103249200	Enhancers	H1 Cell Line	embryonic stem cell
16	chr9:103249000-103249200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr9:103249000-103251800	Weak transcription	Brain Hippocampus Middle	brain

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