Variant report

Variant	rs11259959
Chromosome Location	chr15:83566796-83566797
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10906985	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12385964	0.94[ASN][1000 genomes]
rs1256434	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1256451	0.96[ASN][1000 genomes]
rs1256453	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1256455	0.94[ASN][1000 genomes]
rs13380133	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17360083	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2621227	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2621228	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2667382	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2667383	0.96[ASN][1000 genomes]
rs2667385	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41310978	0.94[ASN][1000 genomes]
rs62011731	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62011732	0.99[ASN][1000 genomes]
rs62011734	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7168760	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7169401	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8038679	0.99[ASN][1000 genomes]
rs9806543	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv522673	chr15:83565711-83570114	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11259959	HOMER2	cis	Skin Sun Exposed Lower leg	GTEx
rs11259959	WHAMM	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:83524600-83567800	Weak transcription	Left Ventricle	heart
2	chr15:83540600-83573200	Weak transcription	Right Atrium	heart
3	chr15:83542400-83567200	Weak transcription	Brain Angular Gyrus	brain
4	chr15:83543600-83567600	Weak transcription	Aorta	Aorta
5	chr15:83558400-83569600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr15:83558600-83567800	Weak transcription	Psoas Muscle	Psoas
7	chr15:83559600-83570200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr15:83560400-83570200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr15:83564200-83569400	Weak transcription	HepG2	liver
10	chr15:83564400-83568000	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr15:83564400-83569400	Weak transcription	Brain Hippocampus Middle	brain
12	chr15:83564400-83569600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr15:83564400-83569800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr15:83564600-83569400	Weak transcription	HSMM	muscle
15	chr15:83565400-83567800	Weak transcription	Fetal Muscle Trunk	muscle
16	chr15:83565400-83568800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr15:83565600-83567800	Weak transcription	Fetal Muscle Leg	muscle
18	chr15:83566000-83568000	Enhancers	HSMMtube	muscle
19	chr15:83566200-83566800	Enhancers	Primary neutrophils fromperipheralblood	blood
20	chr15:83566200-83566800	Enhancers	Gastric	stomach
21	chr15:83566200-83568200	Enhancers	Liver	Liver
22	chr15:83566400-83568200	Genic enhancers	Pancreas	Pancrea
23	chr15:83566400-83568200	Enhancers	Skeletal Muscle Female	skeletal muscle
24	chr15:83566600-83566800	Enhancers	Colon Smooth Muscle	Colon
25	chr15:83566600-83567000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr15:83566600-83567400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr15:83566600-83568000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr15:83566600-83568200	Enhancers	Skeletal Muscle Male	skeletal muscle

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