Variant report

Variant	rs1887620
Chromosome Location	chr9:16459175-16459176
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10511619	0.87[CEU][hapmap]
rs12000878	0.88[CEU][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13299763	0.86[CEU][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13301531	0.87[CEU][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1887619	0.92[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1927637	0.86[CEU][hapmap];0.85[CHB][hapmap];0.92[YRI][hapmap];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2382807	0.83[AFR][1000 genomes]
rs7864652	0.81[LWK][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530933	chr9:16251206-16830845	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv530934	chr9:16281246-16779432	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	esv2761269	chr9:16454393-16462098	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16421800-16460400	Weak transcription	Aorta	Aorta
2	chr9:16437400-16459200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr9:16449200-16459200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr9:16456600-16461200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr9:16456800-16460600	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr9:16457400-16462600	Enhancers	GM12878-XiMat	blood
7	chr9:16457600-16463200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr9:16457800-16459200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr9:16457800-16460000	Enhancers	Colon Smooth Muscle	Colon
10	chr9:16457800-16460600	Enhancers	Fetal Thymus	thymus
11	chr9:16457800-16493400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr9:16458000-16459800	Enhancers	Stomach Smooth Muscle	stomach
13	chr9:16458000-16460000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr9:16458000-16470400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr9:16458400-16459400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr9:16458400-16459800	Enhancers	HUVEC	blood vessel
17	chr9:16458400-16463000	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr9:16458600-16459200	Enhancers	NH-A	brain
19	chr9:16458600-16459600	Enhancers	H1 Cell Line	embryonic stem cell
20	chr9:16458600-16459800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr9:16458600-16459800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr9:16458600-16459800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr9:16458600-16459800	Enhancers	Fetal Stomach	stomach
24	chr9:16458600-16460000	Enhancers	Rectal Smooth Muscle	rectum
25	chr9:16458600-16461000	Enhancers	Ovary	ovary
26	chr9:16458800-16459200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr9:16458800-16459200	Flanking Active TSS	NHEK	skin
28	chr9:16458800-16459200	Flanking Active TSS	NHLF	lung
29	chr9:16458800-16459400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr9:16458800-16459600	Enhancers	ES-I3 Cell Line	embryonic stem cell
31	chr9:16458800-16459600	Enhancers	H9 Cell Line	embryonic stem cell
32	chr9:16458800-16459600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr9:16458800-16459600	Enhancers	HUES6 Cell Line	embryonic stem cell
34	chr9:16458800-16459600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr9:16458800-16459600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr9:16458800-16459600	Enhancers	Fetal Kidney	kidney
37	chr9:16458800-16459600	Enhancers	Sigmoid Colon	Sigmoid Colon
38	chr9:16458800-16459600	Enhancers	HMEC	breast
39	chr9:16458800-16459600	Enhancers	HSMM	muscle
40	chr9:16458800-16459600	Enhancers	Osteobl	bone
41	chr9:16458800-16459800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr9:16458800-16459800	Enhancers	iPS-20b Cell Line	embryonic stem cell
43	chr9:16458800-16459800	Enhancers	Primary T cells from cord blood	blood
44	chr9:16458800-16459800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr9:16458800-16459800	Enhancers	Duodenum Smooth Muscle	Duodenum
46	chr9:16458800-16459800	Enhancers	Fetal Lung	lung
47	chr9:16458800-16459800	Enhancers	Psoas Muscle	Psoas
48	chr9:16458800-16460000	Enhancers	Fetal Muscle Leg	muscle
49	chr9:16458800-16460400	Enhancers	HUES64 Cell Line	embryonic stem cell
50	chr9:16458800-16460800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

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