Variant report

Variant	rs7872444
Chromosome Location	chr9:8738119-8738120
allele	C/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:46)

rs_ID	r²[population]
rs10119621	0.91[AMR][1000 genomes]
rs10122645	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10125895	0.91[AMR][1000 genomes]
rs12336050	0.91[AMR][1000 genomes]
rs12349665	0.91[AMR][1000 genomes]
rs6477335	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6477336	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6477338	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6477339	0.91[AMR][1000 genomes]
rs6477341	0.91[AMR][1000 genomes]
rs6477342	0.91[AMR][1000 genomes]
rs6477343	0.91[AMR][1000 genomes]
rs6477344	0.91[AMR][1000 genomes]
rs6477345	0.82[AMR][1000 genomes]
rs7019648	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7021553	1.00[AMR][1000 genomes]
rs7022836	0.91[AMR][1000 genomes]
rs7031382	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7031558	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7035350	0.91[AMR][1000 genomes]
rs7035352	0.91[AMR][1000 genomes]
rs7036968	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7038493	0.91[AMR][1000 genomes]
rs7038928	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7039040	0.91[AMR][1000 genomes]
rs7039258	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7041986	0.91[AMR][1000 genomes]
rs7046324	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7046939	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7048772	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73431628	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7851535	0.91[AMR][1000 genomes]
rs7851825	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7852417	0.91[AMR][1000 genomes]
rs7856854	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7857860	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7862046	0.91[AMR][1000 genomes]
rs7862573	0.82[AMR][1000 genomes]
rs7862892	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs7863481	0.91[AMR][1000 genomes]
rs7865769	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7869843	0.91[AMR][1000 genomes]
rs7870548	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7872326	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7873999	0.91[AMR][1000 genomes]
rs892498	0.82[AMR][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:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8722000-8744600	Weak transcription	Dnd41	blood
2	chr9:8734200-8743400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr9:8734400-8739200	Enhancers	Brain Hippocampus Middle	brain
4	chr9:8735200-8738800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr9:8735400-8738800	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr9:8735600-8738800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr9:8735600-8739000	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr9:8735600-8750600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr9:8735800-8738800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr9:8735800-8739200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr9:8736200-8739200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr9:8737000-8738800	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr9:8737200-8738200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr9:8737200-8739000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr9:8737200-8741000	Weak transcription	Brain Angular Gyrus	brain
16	chr9:8737200-8742800	Weak transcription	Fetal Brain Male	brain
17	chr9:8737200-8750400	Weak transcription	Fetal Heart	heart
18	chr9:8737400-8738400	Weak transcription	Brain Substantia Nigra	brain
19	chr9:8737400-8738800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr9:8737400-8738800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr9:8737400-8738800	Weak transcription	Brain Anterior Caudate	brain
22	chr9:8737400-8738800	Weak transcription	Brain Cingulate Gyrus	brain
23	chr9:8737400-8738800	Weak transcription	Fetal Lung	lung
24	chr9:8737600-8738800	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr9:8737600-8738800	Weak transcription	Brain Germinal Matrix	brain
26	chr9:8737600-8750600	Weak transcription	Brain Inferior Temporal Lobe	brain

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