Variant report

Variant	rs1836229
Chromosome Location	chr9:8820573-8820574
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10116689	0.88[EUR][1000 genomes]
rs10118318	0.93[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.94[ASN][1000 genomes]
rs10119815	0.88[EUR][1000 genomes]
rs10120450	0.89[CEU][hapmap];0.80[CHB][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10120478	0.93[CHB][hapmap];0.93[JPT][hapmap];0.94[ASN][1000 genomes]
rs10120501	0.92[CEU][hapmap];0.80[CHB][hapmap];0.88[EUR][1000 genomes]
rs10121203	0.89[CEU][hapmap];0.80[CHB][hapmap];0.88[EUR][1000 genomes]
rs10121702	0.96[ASN][1000 genomes]
rs10124428	1.00[CHB][hapmap];0.93[JPT][hapmap];0.88[ASN][1000 genomes]
rs10739173	0.88[EUR][1000 genomes]
rs10758996	0.89[CEU][hapmap];0.80[CHB][hapmap];0.88[EUR][1000 genomes]
rs10758997	0.93[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10758998	0.81[JPT][hapmap];0.88[ASN][1000 genomes]
rs10815961	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10815964	0.92[CEU][hapmap];0.80[CHB][hapmap]
rs10815965	0.93[ASN][1000 genomes]
rs10977314	0.93[CHB][hapmap];0.93[JPT][hapmap];0.88[ASN][1000 genomes]
rs1434253	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1434254	0.92[CEU][hapmap];0.80[CHB][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1434255	0.91[ASN][1000 genomes]
rs1434256	0.93[CHB][hapmap];0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs1434258	0.93[CHB][hapmap];0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs1434273	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1836227	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1836230	0.93[CEU][hapmap];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1836231	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1865338	0.88[ASN][1000 genomes]
rs1972798	0.88[ASN][1000 genomes]
rs2053125	0.89[CEU][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2099406	0.86[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2570295	0.85[ASN][1000 genomes]
rs2570299	0.93[CHB][hapmap];0.85[ASN][1000 genomes]
rs2570964	0.85[ASN][1000 genomes]
rs4372066	0.93[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs6477358	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7024487	0.88[ASN][1000 genomes]
rs7035236	0.88[ASN][1000 genomes]
rs7048621	0.92[CEU][hapmap];0.80[CHB][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7048788	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7853143	0.81[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs7863423	0.81[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs7864437	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7864464	0.81[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs7864663	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7864670	0.93[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 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	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
4	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
5	nsv892236	chr9:8745520-8870553	Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1015898	chr9:8753534-9011443	Active TSS Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv892240	chr9:8796449-8834108	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers	TF binding region	1 gene(s)	inside rSNPs	diseases
8	nsv892241	chr9:8805462-8822267	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8794200-8821800	Weak transcription	Primary hematopoietic stem cells	blood
2	chr9:8794800-8825600	Weak transcription	Ovary	ovary
3	chr9:8808000-8825600	Weak transcription	Aorta	Aorta
4	chr9:8810600-8822600	Weak transcription	Fetal Muscle Leg	muscle
5	chr9:8816600-8825200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr9:8817000-8832000	Weak transcription	Fetal Heart	heart
7	chr9:8817200-8821600	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr9:8817200-8822400	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr9:8817200-8822600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr9:8817200-8823000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr9:8817200-8824200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr9:8817200-8825000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr9:8817200-8831800	Weak transcription	Fetal Lung	lung
14	chr9:8817600-8822200	Weak transcription	Brain Angular Gyrus	brain
15	chr9:8817600-8822800	Weak transcription	Fetal Brain Female	brain
16	chr9:8817600-8823400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr9:8817600-8824000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr9:8817600-8826000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr9:8817800-8822800	Weak transcription	Brain Anterior Caudate	brain
20	chr9:8817800-8824200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr9:8818000-8821200	Weak transcription	Brain Hippocampus Middle	brain
22	chr9:8818000-8822600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr9:8818000-8824000	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr9:8818200-8823600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr9:8818800-8821000	Weak transcription	Brain Cingulate Gyrus	brain
26	chr9:8819800-8821600	Enhancers	Liver	Liver
27	chr9:8820000-8820600	Weak transcription	Brain Substantia Nigra	brain

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