Variant report

Variant	rs9646566
Chromosome Location	chr18:25583199-25583200
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs12955211	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1662731	1.00[CHB][hapmap]
rs17445662	0.85[CEU][hapmap]
rs17445819	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17445833	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17445840	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17445973	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17446036	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs17446064	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs17446134	0.91[JPT][hapmap];1.00[YRI][hapmap]
rs17446162	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs17446176	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs17446218	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs17446337	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs17446358	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs17446372	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs17446386	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs17446435	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs17468226	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17468268	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17468324	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17468469	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs17468601	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs17468650	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs17468755	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs17468811	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs2298574	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[ASN][1000 genomes]
rs2586577	1.00[CHB][hapmap]
rs28365282	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28365284	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28365300	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs3786420	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41274322	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs505314	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6508523	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7238774	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8095618	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2761996	chr18:24866083-25818618	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv1066192	chr18:25454413-25606736	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv543669	chr18:25454413-25606736	Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv833605	chr18:25467096-25643447	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:25531200-25593600	Weak transcription	Fetal Kidney	kidney
2	chr18:25545600-25588600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr18:25553000-25593600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr18:25556200-25586800	Weak transcription	Spleen	Spleen
5	chr18:25556200-25592800	Weak transcription	Aorta	Aorta
6	chr18:25556200-25595800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr18:25556400-25584600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr18:25558800-25583600	Weak transcription	Right Ventricle	heart
9	chr18:25564800-25591400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr18:25565000-25592800	Weak transcription	A549	lung
11	chr18:25565200-25591800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr18:25566400-25584600	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr18:25571600-25588800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr18:25572800-25589800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr18:25573000-25590000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr18:25573600-25591200	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr18:25573600-25593400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr18:25574800-25584800	Weak transcription	HSMMtube	muscle
19	chr18:25575600-25591400	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr18:25576400-25583800	Strong transcription	Liver	Liver
21	chr18:25577000-25591000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr18:25577200-25583200	Strong transcription	HSMM	muscle
23	chr18:25577200-25583800	Weak transcription	Fetal Lung	lung
24	chr18:25577400-25583400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr18:25577600-25589800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr18:25577800-25585200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr18:25578000-25583600	Strong transcription	HUES6 Cell Line	embryonic stem cell
28	chr18:25578200-25583200	Strong transcription	Brain Germinal Matrix	brain
29	chr18:25578200-25591400	Strong transcription	HUES64 Cell Line	embryonic stem cell
30	chr18:25579000-25584000	Weak transcription	Fetal Brain Male	brain
31	chr18:25579200-25583800	Weak transcription	Brain Anterior Caudate	brain
32	chr18:25579200-25591400	Weak transcription	HepG2	liver
33	chr18:25580600-25593400	Weak transcription	Ovary	ovary
34	chr18:25580600-25595800	Weak transcription	Left Ventricle	heart
35	chr18:25580800-25589600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr18:25581800-25586400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr18:25582000-25583600	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr18:25582000-25584400	Enhancers	Brain Inferior Temporal Lobe	brain
39	chr18:25582000-25586200	Strong transcription	Cortex derived primary cultured neurospheres	brain
40	chr18:25582200-25584600	Strong transcription	Fetal Heart	heart
41	chr18:25582200-25585600	Enhancers	Brain Hippocampus Middle	brain
42	chr18:25582200-25585600	Enhancers	HUVEC	blood vessel
43	chr18:25582400-25583200	Enhancers	Brain Substantia Nigra	brain
44	chr18:25582400-25588400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
45	chr18:25582400-25593200	Weak transcription	Brain Cingulate Gyrus	brain
46	chr18:25582600-25584600	Weak transcription	Fetal Brain Female	brain
47	chr18:25582600-25594000	Weak transcription	Dnd41	blood
48	chr18:25582800-25583200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
49	chr18:25582800-25584200	Enhancers	Brain Angular Gyrus	brain
50	chr18:25582800-25585600	Enhancers	Muscle Satellite Cultured Cells	--

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