Variant report

Variant	rs3802609
Chromosome Location	chr10:27025659-27025660
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10741116	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10764638	0.85[CEU][hapmap]
rs10829064	0.80[CEU][hapmap]
rs1998634	0.87[CEU][hapmap]
rs2031562	0.82[MKK][hapmap]
rs2368184	0.82[CEU][hapmap]
rs3916988	0.82[CEU][hapmap]
rs6482572	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3415799	chr10:26929831-27233591	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv933544	chr10:27005220-27111998	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	esv2761585	chr10:27010701-27026012	Strong transcription Enhancers Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3802609	LYZL2	cis	cerebellum	SCAN

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:26987800-27031200	Weak transcription	NHDF-Ad	bronchial
2	chr10:26988000-27069600	Weak transcription	Colon Smooth Muscle	Colon
3	chr10:26989400-27031000	Weak transcription	Small Intestine	intestine
4	chr10:26994400-27040800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr10:26995800-27026600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
6	chr10:26996000-27026600	Strong transcription	Primary monocytes fromperipheralblood	blood
7	chr10:26996200-27026200	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr10:26996200-27028000	Weak transcription	Psoas Muscle	Psoas
9	chr10:26997600-27054400	Weak transcription	Fetal Brain Male	brain
10	chr10:26999800-27037400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr10:27001000-27031800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr10:27001200-27041200	Strong transcription	Fetal Thymus	thymus
13	chr10:27001800-27041200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr10:27004200-27031200	Weak transcription	Hela-S3	cervix
15	chr10:27007800-27041200	Strong transcription	Dnd41	blood
16	chr10:27009600-27032200	Strong transcription	Fetal Muscle Trunk	muscle
17	chr10:27010000-27034600	Strong transcription	Thymus	Thymus
18	chr10:27011000-27027000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr10:27011200-27026200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
20	chr10:27011200-27026400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr10:27011200-27047400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr10:27011400-27027000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr10:27012000-27044400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
24	chr10:27015200-27035400	Weak transcription	Stomach Mucosa	stomach
25	chr10:27015800-27032400	Strong transcription	Fetal Stomach	stomach
26	chr10:27016000-27027600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr10:27018000-27025800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr10:27018000-27036400	Strong transcription	K562	blood
29	chr10:27018000-27038800	Strong transcription	Rectal Mucosa Donor 29	rectum
30	chr10:27018200-27025800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr10:27019200-27026000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
32	chr10:27019400-27025800	Strong transcription	Skeletal Muscle Male	skeletal muscle
33	chr10:27019400-27026000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr10:27019400-27027200	Strong transcription	Fetal Muscle Leg	muscle
35	chr10:27019600-27025800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr10:27019600-27026000	Strong transcription	Stomach Smooth Muscle	stomach
37	chr10:27019800-27036000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr10:27020200-27026000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr10:27020400-27025800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr10:27020400-27026200	Strong transcription	Adipose Nuclei	Adipose
41	chr10:27020400-27026200	Strong transcription	Left Ventricle	heart
42	chr10:27020400-27026400	Strong transcription	Skeletal Muscle Female	skeletal muscle
43	chr10:27020400-27027600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr10:27020400-27035400	Strong transcription	Primary T cells from cord blood	blood
45	chr10:27020600-27026200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr10:27020600-27028600	Strong transcription	NHEK	skin
47	chr10:27020800-27025800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr10:27020800-27026400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr10:27021000-27025800	Strong transcription	HMEC	breast
50	chr10:27021200-27025800	Strong transcription	Primary T cells fromperipheralblood	blood

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