Variant report

Variant	rs2506759
Chromosome Location	chr9:15154850-15154851
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TTC39B-2	chr9:15153622-15156031	ucscGeneNc_uc003zlo_1

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10122193	0.83[AMR][1000 genomes]
rs10738388	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10738389	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs1620257	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1780149	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1830727	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1853479	0.82[AMR][1000 genomes]
rs2057479	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2096366	0.84[AMR][1000 genomes]
rs2761130	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2761135	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2761136	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2761139	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2800577	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2800582	1.00[ASN][1000 genomes]
rs2800585	0.82[ASN][1000 genomes]
rs2800591	1.00[JPT][hapmap]
rs702198	1.00[ASN][1000 genomes]
rs7026350	1.00[ASN][1000 genomes]
rs932711	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs932712	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs932713	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs971834	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs971835	1.00[CHB][hapmap];0.85[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831519	chr9:15018160-15209127	Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1019567	chr9:15031398-15159409	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15137200-15156000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr9:15146800-15160400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr9:15147200-15156400	Weak transcription	Fetal Brain Male	brain
4	chr9:15148000-15155400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr9:15151000-15156400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr9:15151400-15155400	Weak transcription	Osteobl	bone
7	chr9:15152600-15157600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr9:15153000-15157200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr9:15153600-15155200	Enhancers	Aorta	Aorta
10	chr9:15153600-15155200	Enhancers	Right Atrium	heart
11	chr9:15153600-15155600	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr9:15154000-15156000	Weak transcription	Fetal Muscle Leg	muscle
13	chr9:15154400-15155200	Enhancers	Fetal Stomach	stomach
14	chr9:15154400-15155200	Enhancers	Ovary	ovary
15	chr9:15154600-15155000	Enhancers	Rectal Mucosa Donor 31	rectum
16	chr9:15154600-15155000	Enhancers	Stomach Smooth Muscle	stomach
17	chr9:15154600-15155200	Enhancers	Psoas Muscle	Psoas
18	chr9:15154600-15155400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr9:15154600-15155600	Enhancers	Rectal Smooth Muscle	rectum
20	chr9:15154600-15155800	Enhancers	Skeletal Muscle Male	skeletal muscle
21	chr9:15154600-15156800	Enhancers	Fetal Kidney	kidney
22	chr9:15154800-15155000	Enhancers	Fetal Brain Female	brain
23	chr9:15154800-15155200	Enhancers	Colon Smooth Muscle	Colon
24	chr9:15154800-15155200	Enhancers	Duodenum Smooth Muscle	Duodenum
25	chr9:15154800-15155200	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr9:15154800-15155400	Enhancers	Brain Germinal Matrix	brain
27	chr9:15154800-15155400	Enhancers	Fetal Lung	lung
28	chr9:15154800-15156600	Weak transcription	Left Ventricle	heart
29	chr9:15154800-15157000	Enhancers	HUVEC	blood vessel
30	chr9:15154800-15159200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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