Variant report

Variant	rs9991354
Chromosome Location	chr4:99554889-99554890
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10022548	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28574900	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28591094	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28722480	0.85[AMR][1000 genomes]
rs28732372	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs59383241	0.83[AMR][1000 genomes]
rs6532756	0.93[AMR][1000 genomes];0.91[EUR][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	nsv594940	chr4:99542475-99573350	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9991354	RP11-1299A16.3	cis	Muscle Skeletal	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:99546600-99560000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr4:99546800-99559800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr4:99547800-99559200	Weak transcription	Stomach Mucosa	stomach
4	chr4:99548000-99560600	Weak transcription	Right Atrium	heart
5	chr4:99548000-99569200	Weak transcription	Gastric	stomach
6	chr4:99548000-99577000	Weak transcription	Esophagus	oesophagus
7	chr4:99548400-99563600	Weak transcription	HSMM	muscle
8	chr4:99549600-99563200	Weak transcription	HMEC	breast
9	chr4:99549800-99563600	Weak transcription	NHEK	skin
10	chr4:99550000-99563600	Weak transcription	HUVEC	blood vessel
11	chr4:99550600-99555000	Enhancers	Fetal Brain Male	brain
12	chr4:99551600-99555000	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr4:99551800-99563200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr4:99552200-99559400	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr4:99552400-99556000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
16	chr4:99552600-99569600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr4:99552800-99559200	Weak transcription	Placenta	Placenta
18	chr4:99552800-99560000	Weak transcription	Thymus	Thymus
19	chr4:99552800-99560200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr4:99552800-99569200	Weak transcription	Fetal Stomach	stomach
21	chr4:99553000-99559200	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr4:99553000-99559400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
23	chr4:99553200-99559400	Weak transcription	NHLF	lung
24	chr4:99553200-99564200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr4:99553600-99557400	Weak transcription	Fetal Heart	heart
26	chr4:99553600-99560000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr4:99553800-99556400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr4:99554000-99558000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr4:99554000-99558400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr4:99554000-99564000	Weak transcription	Osteobl	bone
31	chr4:99554200-99556000	Weak transcription	Brain Hippocampus Middle	brain
32	chr4:99554200-99556400	Weak transcription	Brain Angular Gyrus	brain
33	chr4:99554200-99558000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr4:99554200-99558000	Weak transcription	Brain Substantia Nigra	brain
35	chr4:99554200-99558200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr4:99554200-99558400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr4:99554200-99559200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr4:99554200-99559200	Weak transcription	NHDF-Ad	bronchial
39	chr4:99554200-99562600	Weak transcription	NH-A	brain
40	chr4:99554200-99564200	Weak transcription	Pancreas	Pancrea
41	chr4:99554200-99569200	Weak transcription	Spleen	Spleen
42	chr4:99554400-99555800	Weak transcription	Fetal Brain Female	brain
43	chr4:99554400-99556600	Weak transcription	Brain Anterior Caudate	brain
44	chr4:99554400-99558200	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr4:99554400-99564200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr4:99554600-99555800	Weak transcription	Brain Cingulate Gyrus	brain
47	chr4:99554600-99556600	Strong transcription	Cortex derived primary cultured neurospheres	brain
48	chr4:99554800-99555000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
49	chr4:99554800-99556800	Enhancers	Ovary	ovary
50	chr4:99554800-99557200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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