Variant report

Variant	rs17154024
Chromosome Location	chr10:44110651-44110652
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:44110485..44111989-chr10:44138291..44140917,2	K562	blood:
2	chr10:44100609..44102686-chr10:44109386..44112543,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000232004	Chromatin interaction
ENSG00000226245	Chromatin interaction
ENSG00000198298	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs11238595	0.95[CEU][hapmap];0.81[MKK][hapmap]
rs12354886	0.86[ASW][hapmap];0.80[CEU][hapmap];1.00[MEX][hapmap];0.86[YRI][hapmap];0.80[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs3006382	0.84[CEU][hapmap]
rs7075288	0.90[CEU][hapmap]

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	nsv522992	chr10:44110341-44114384	ZNF genes & repeats Weak transcription Strong transcription	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17154024	ZNF239	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:44102600-44112200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr10:44102800-44110800	Weak transcription	Gastric	stomach
3	chr10:44102800-44110800	Weak transcription	Small Intestine	intestine
4	chr10:44102800-44110800	Weak transcription	Stomach Mucosa	stomach
5	chr10:44102800-44111000	Weak transcription	Rectal Smooth Muscle	rectum
6	chr10:44102800-44111200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr10:44102800-44111200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr10:44102800-44111400	Weak transcription	Brain Hippocampus Middle	brain
9	chr10:44102800-44111400	Weak transcription	Colon Smooth Muscle	Colon
10	chr10:44102800-44111400	Weak transcription	Fetal Lung	lung
11	chr10:44102800-44111600	Weak transcription	Left Ventricle	heart
12	chr10:44102800-44111800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr10:44102800-44111800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr10:44102800-44111800	Weak transcription	Brain Germinal Matrix	brain
15	chr10:44102800-44111800	Weak transcription	Brain Substantia Nigra	brain
16	chr10:44102800-44111800	Weak transcription	Fetal Kidney	kidney
17	chr10:44102800-44111800	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr10:44102800-44111800	Weak transcription	Right Ventricle	heart
19	chr10:44102800-44118800	Weak transcription	Fetal Heart	heart
20	chr10:44103000-44111200	Weak transcription	Fetal Brain Female	brain
21	chr10:44103000-44111400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr10:44103000-44111400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr10:44103000-44111400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr10:44103000-44111600	Weak transcription	Fetal Brain Male	brain
25	chr10:44103000-44111800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr10:44103000-44111800	Weak transcription	Brain Cingulate Gyrus	brain
27	chr10:44103000-44111800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr10:44103000-44111800	Weak transcription	Colonic Mucosa	Colon
29	chr10:44103000-44112200	Weak transcription	Brain Angular Gyrus	brain
30	chr10:44104600-44111800	Weak transcription	Pancreas	Pancrea
31	chr10:44104800-44111800	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr10:44105400-44111000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr10:44105600-44111200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr10:44105800-44111200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr10:44105800-44111600	Weak transcription	Stomach Smooth Muscle	stomach
36	chr10:44106000-44114200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr10:44106200-44113400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
38	chr10:44106200-44113600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr10:44106400-44112400	Weak transcription	Brain Anterior Caudate	brain
40	chr10:44107800-44113800	ZNF genes & repeats	Liver	Liver
41	chr10:44108400-44110800	Strong transcription	Cortex derived primary cultured neurospheres	brain
42	chr10:44108600-44111000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
43	chr10:44108600-44113000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
44	chr10:44108600-44113000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr10:44108600-44113200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr10:44108600-44113400	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
47	chr10:44108800-44111600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr10:44108800-44111800	Strong transcription	Ovary	ovary
49	chr10:44108800-44112000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr10:44108800-44112400	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood

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