Variant report

Variant	rs17690170
Chromosome Location	chr3:179383766-179383767
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 6 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs5020912	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6443664	0.83[CHD][hapmap]
rs6784543	0.96[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9828793	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9835581	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9848970	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17690170	ZNF776	trans	cerebellum	SCAN
rs17690170	MCCC1	cis	cerebellum	SCAN

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179372200-179383800	Weak transcription	Esophagus	oesophagus
2	chr3:179372600-179383800	Weak transcription	HSMM	muscle
3	chr3:179372600-179384200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr3:179372600-179403200	Weak transcription	Primary B cells from cord blood	blood
5	chr3:179372600-179408400	Weak transcription	Fetal Intestine Small	intestine
6	chr3:179372600-179425200	Weak transcription	Primary hematopoietic stem cells	blood
7	chr3:179373000-179383800	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr3:179373200-179383800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr3:179373200-179383800	Weak transcription	Fetal Brain Male	brain
10	chr3:179373200-179384200	Weak transcription	NHLF	lung
11	chr3:179374600-179408000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr3:179374800-179384000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr3:179375000-179389200	Weak transcription	Hela-S3	cervix
14	chr3:179376000-179384200	Weak transcription	Fetal Muscle Trunk	muscle
15	chr3:179376600-179384000	Weak transcription	Fetal Stomach	stomach
16	chr3:179376600-179400800	Weak transcription	Dnd41	blood
17	chr3:179376800-179383800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr3:179376800-179383800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr3:179377000-179383800	Enhancers	Skeletal Muscle Male	skeletal muscle
20	chr3:179377000-179384000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr3:179377000-179384000	Weak transcription	Stomach Smooth Muscle	stomach
22	chr3:179377200-179383800	Enhancers	Skeletal Muscle Female	skeletal muscle
23	chr3:179379200-179385200	Enhancers	Fetal Heart	heart
24	chr3:179379800-179383800	Weak transcription	Ovary	ovary
25	chr3:179380000-179383800	Weak transcription	Fetal Brain Female	brain
26	chr3:179380200-179383800	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr3:179380200-179383800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
28	chr3:179380400-179383800	Weak transcription	HUES48 Cell Line	embryonic stem cell
29	chr3:179380400-179383800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
30	chr3:179380400-179383800	Weak transcription	Fetal Lung	lung
31	chr3:179380400-179384400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr3:179380600-179383800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr3:179380600-179383800	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr3:179380600-179383800	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr3:179380600-179418800	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr3:179380800-179383800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr3:179380800-179383800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
38	chr3:179381200-179383800	Weak transcription	Brain Anterior Caudate	brain
39	chr3:179381200-179383800	Weak transcription	Brain Hippocampus Middle	brain
40	chr3:179381400-179384000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr3:179381600-179383800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr3:179381600-179384000	Weak transcription	Brain Cingulate Gyrus	brain
43	chr3:179381600-179384200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr3:179381800-179383800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr3:179381800-179383800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr3:179381800-179383800	Weak transcription	Brain Angular Gyrus	brain
47	chr3:179381800-179383800	Weak transcription	Brain Inferior Temporal Lobe	brain
48	chr3:179381800-179383800	Weak transcription	Right Atrium	heart
49	chr3:179381800-179384000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
50	chr3:179381800-179384000	Weak transcription	Lung	lung

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