Variant report

Variant	rs13289939
Chromosome Location	chr9:103298058-103298059
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs11788011	0.80[EUR][1000 genomes]
rs11788350	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11788918	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11789665	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11790432	0.80[AMR][1000 genomes]
rs11791916	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11792489	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11792747	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11792926	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11793144	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11793359	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11793457	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11794817	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13283467	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13284662	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13286180	0.80[AMR][1000 genomes]
rs13286835	0.85[EUR][1000 genomes]
rs13292364	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13294866	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13301847	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13302460	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28759503	0.80[AMR][1000 genomes]
rs34138998	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34169031	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34234519	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34390257	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34555593	0.80[AMR][1000 genomes]
rs34759817	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34779059	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34798346	0.80[AMR][1000 genomes]
rs34999135	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35039632	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35255178	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35315430	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35388593	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35394420	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35495064	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35656901	0.80[AMR][1000 genomes]
rs35729051	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs36011161	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs36055955	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs36105493	0.80[AMR][1000 genomes]
rs55693063	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7019804	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71507684	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs71507685	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs71507686	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs71507687	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7869547	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9696536	0.80[AMR][1000 genomes];0.89[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	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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:103255600-103301600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr9:103261600-103340200	Weak transcription	Left Ventricle	heart
3	chr9:103263200-103312200	Weak transcription	Fetal Kidney	kidney
4	chr9:103263400-103327600	Weak transcription	Aorta	Aorta
5	chr9:103272600-103307000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr9:103273000-103303600	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr9:103273600-103337600	Weak transcription	NHDF-Ad	bronchial
8	chr9:103278400-103306400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr9:103278400-103333000	Weak transcription	Fetal Brain Male	brain
10	chr9:103279600-103312000	Weak transcription	HSMM	muscle
11	chr9:103289800-103299800	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr9:103289800-103300600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr9:103289800-103301000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr9:103289800-103301200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr9:103289800-103301400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr9:103289800-103301400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr9:103290000-103299600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr9:103290000-103301200	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr9:103290000-103305200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr9:103290000-103306400	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr9:103290200-103300800	Weak transcription	Fetal Brain Female	brain
22	chr9:103290400-103298800	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr9:103290400-103301200	Weak transcription	Fetal Stomach	stomach
24	chr9:103290400-103301600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr9:103290400-103302200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr9:103290400-103304400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr9:103295600-103303200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr9:103296000-103300200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr9:103296400-103302200	Strong transcription	HUES64 Cell Line	embryonic stem cell
30	chr9:103296400-103304800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
31	chr9:103296800-103316600	Weak transcription	HSMMtube	muscle
32	chr9:103297000-103302000	Weak transcription	Brain Germinal Matrix	brain
33	chr9:103297000-103306400	Weak transcription	Brain Substantia Nigra	brain
34	chr9:103297000-103312800	Weak transcription	Brain Anterior Caudate	brain
35	chr9:103297200-103298600	Weak transcription	HepG2	liver
36	chr9:103297200-103301600	Weak transcription	Brain Inferior Temporal Lobe	brain
37	chr9:103297200-103306800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr9:103297200-103307200	Weak transcription	Brain Cingulate Gyrus	brain
39	chr9:103297400-103307200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr9:103297400-103312000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr9:103297800-103307000	Weak transcription	Brain Hippocampus Middle	brain

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