Variant report

Variant	rs17536636
Chromosome Location	chr10:92782367-92782368
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 11 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10509615	0.93[ASN][1000 genomes]
rs17103986	0.93[ASN][1000 genomes]
rs17535998	1.00[ASW][hapmap];1.00[AFR][1000 genomes]
rs17536094	0.86[CEU][hapmap];1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs55801282	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs55863711	1.00[AFR][1000 genomes]
rs61857869	1.00[AFR][1000 genomes]
rs61857871	1.00[AFR][1000 genomes]
rs61857878	1.00[ASN][1000 genomes]
rs61859607	1.00[AFR][1000 genomes]
rs61859608	1.00[AFR][1000 genomes]
rs61859609	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831945	chr10:92590576-92793582	Active TSS Enhancers Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv430255	chr10:92769660-92872941	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv430258	chr10:92770145-92817973	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv430256	chr10:92770145-92872941	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv430260	chr10:92778715-92821721	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv430259	chr10:92778715-92848304	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:11)

SNP	Gene	Cis/trans	Tissue	Source
rs17536636	LOC643599	cis	multi-tissue	Pritchard
rs17536636	PLEKHA6	cis	Temporal Cortex	GTEx
rs17536636	DNAJA2	cis	Temporal Cortex	GTEx
rs17536636	CYP2C19	cis	parietal	SCAN
rs17536636	C14orf169	cis	Temporal Cortex	GTEx
rs17536636	TRAPPC3	cis	Temporal Cortex	GTEx
rs17536636	PFN1	cis	Temporal Cortex	GTEx
rs17536636	CLASP1	cis	Temporal Cortex	GTEx
rs17536636	IDE	cis	parietal	SCAN
rs17536636	CAMSAP1L1	cis	Temporal Cortex	GTEx
rs17536636	CCPG1	cis	Temporal Cortex	GTEx

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:92761800-92782800	Weak transcription	Aorta	Aorta
2	chr10:92775600-92783000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr10:92777600-92782400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr10:92780200-92784800	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr10:92780200-92784800	Enhancers	Fetal Muscle Leg	muscle
6	chr10:92780600-92783000	Enhancers	Brain Cingulate Gyrus	brain
7	chr10:92781000-92782400	Enhancers	Brain Hippocampus Middle	brain
8	chr10:92781000-92782400	Enhancers	Dnd41	blood
9	chr10:92781000-92783000	Enhancers	Brain Anterior Caudate	brain
10	chr10:92781000-92784600	Enhancers	Fetal Heart	heart
11	chr10:92781000-92784800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
12	chr10:92781200-92782800	Enhancers	Brain Substantia Nigra	brain
13	chr10:92781200-92785800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr10:92781400-92782400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr10:92781400-92783000	Enhancers	Brain Inferior Temporal Lobe	brain
16	chr10:92781400-92783000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
17	chr10:92781400-92783400	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr10:92781400-92783600	Enhancers	Fetal Muscle Trunk	muscle
19	chr10:92781400-92783600	Enhancers	Left Ventricle	heart
20	chr10:92781400-92783800	Enhancers	Brain Angular Gyrus	brain
21	chr10:92781400-92784400	Enhancers	HSMM	muscle
22	chr10:92781600-92782400	Enhancers	HSMMtube	muscle
23	chr10:92781600-92782400	Bivalent Enhancer	NHDF-Ad	bronchial
24	chr10:92781600-92783800	Enhancers	Skeletal Muscle Male	skeletal muscle
25	chr10:92781600-92784600	Enhancers	Fetal Thymus	thymus
26	chr10:92781600-92784600	Enhancers	Ovary	ovary
27	chr10:92781600-92784800	Enhancers	Right Atrium	heart
28	chr10:92781800-92783400	Enhancers	Muscle Satellite Cultured Cells	--
29	chr10:92781800-92784800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr10:92782000-92783000	Enhancers	Brain Germinal Matrix	brain
31	chr10:92782000-92783200	Enhancers	Fetal Brain Female	brain
32	chr10:92782000-92783200	Enhancers	Fetal Kidney	kidney
33	chr10:92782000-92784000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr10:92782000-92785000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr10:92782200-92782400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr10:92782200-92784600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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