Variant report

Variant	rs28539901
Chromosome Location	chr9:8735237-8735238
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs1836225	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7860649	0.98[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022796	chr9:8360729-9110046	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv892235	chr9:8700396-8865925	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv6474	chr9:8706602-8751414	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1025800	chr9:8712487-9030627	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv539980	chr9:8712487-9030627	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8722000-8744600	Weak transcription	Dnd41	blood
2	chr9:8732200-8735400	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr9:8732600-8735600	Enhancers	HUES6 Cell Line	embryonic stem cell
4	chr9:8732800-8735600	Enhancers	Fetal Brain Male	brain
5	chr9:8733000-8737200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr9:8733200-8736200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr9:8733400-8735400	Enhancers	H9 Cell Line	embryonic stem cell
8	chr9:8733600-8736800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr9:8734000-8735600	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr9:8734000-8737200	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr9:8734000-8737400	Enhancers	Brain Substantia Nigra	brain
12	chr9:8734200-8735400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr9:8734200-8735600	Enhancers	Fetal Muscle Leg	muscle
14	chr9:8734200-8736200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
15	chr9:8734200-8743400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr9:8734400-8736800	Weak transcription	Fetal Heart	heart
17	chr9:8734400-8737400	Enhancers	Brain Cingulate Gyrus	brain
18	chr9:8734400-8737600	Enhancers	Cortex derived primary cultured neurospheres	brain
19	chr9:8734400-8739200	Enhancers	Brain Hippocampus Middle	brain
20	chr9:8734600-8737400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr9:8734800-8735600	Weak transcription	Brain Angular Gyrus	brain
22	chr9:8735000-8735400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr9:8735000-8735400	Weak transcription	Fetal Brain Female	brain
24	chr9:8735000-8735400	Enhancers	Fetal Muscle Trunk	muscle
25	chr9:8735000-8735600	Enhancers	H1 Cell Line	embryonic stem cell
26	chr9:8735000-8735600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr9:8735000-8735800	Enhancers	iPS-20b Cell Line	embryonic stem cell
28	chr9:8735000-8736000	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr9:8735000-8736600	Weak transcription	Fetal Lung	lung
30	chr9:8735000-8736800	Weak transcription	Brain Germinal Matrix	brain
31	chr9:8735000-8737000	Enhancers	HUES48 Cell Line	embryonic stem cell
32	chr9:8735000-8737000	Weak transcription	Fetal Kidney	kidney
33	chr9:8735200-8735600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr9:8735200-8735600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
35	chr9:8735200-8735600	Weak transcription	Brain Anterior Caudate	brain
36	chr9:8735200-8735800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr9:8735200-8735800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr9:8735200-8736800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
39	chr9:8735200-8738800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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