Variant report

Variant	rs2039723
Chromosome Location	chr10:44109024-44109025
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:44106490..44109118-chr10:44143057..44145565,2	K562	blood:
2	chr10:44100054..44103466-chr10:44107362..44110326,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF32-5	chr10:44108726-44109163	NONHSAT012975

Variant related genes	Relation type
ENSG00000232004	Chromatin interaction
ENSG00000198298	Chromatin interaction
ENSG00000169740	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10793447	1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];0.87[JPT][hapmap];0.86[ASN][1000 genomes]
rs10793448	0.83[ASN][1000 genomes]
rs10793449	1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs10793450	0.86[ASN][1000 genomes]
rs10793451	0.89[CHB][hapmap];0.84[CHD][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs10899836	0.81[CEU][hapmap]
rs10899837	0.90[ASN][1000 genomes]
rs10899838	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs11238592	0.94[CHB][hapmap];0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs1974282	0.94[CHB][hapmap];0.87[JPT][hapmap];0.86[ASN][1000 genomes]
rs2039724	0.89[CHB][hapmap];0.89[JPT][hapmap]
rs2066045	0.86[ASN][1000 genomes]
rs2066046	1.00[CHB][hapmap];0.87[JPT][hapmap];0.86[ASN][1000 genomes]
rs2393936	0.89[CHB][hapmap];0.89[JPT][hapmap]
rs3123680	0.89[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs3123681	0.85[ASN][1000 genomes]
rs4948749	0.83[CHB][hapmap];0.89[JPT][hapmap]
rs6593362	0.94[CHB][hapmap];0.97[CHD][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs7342073	0.89[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs7474652	0.81[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2039723	ZNF239	Cis_1M	lymphoblastoid	RTeQTL
rs2039723	ZNF239	cis	lymphoblastoid	seeQTL

Chromatin state (count:111 , 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	chr10:44102800-44109200	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr10:44102800-44109600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr10:44102800-44109800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr10:44102800-44109800	Weak transcription	Thymus	Thymus
6	chr10:44102800-44110200	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr10:44102800-44110800	Weak transcription	Gastric	stomach
8	chr10:44102800-44110800	Weak transcription	Small Intestine	intestine
9	chr10:44102800-44110800	Weak transcription	Stomach Mucosa	stomach
10	chr10:44102800-44111000	Weak transcription	Rectal Smooth Muscle	rectum
11	chr10:44102800-44111200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr10:44102800-44111200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr10:44102800-44111400	Weak transcription	Brain Hippocampus Middle	brain
14	chr10:44102800-44111400	Weak transcription	Colon Smooth Muscle	Colon
15	chr10:44102800-44111400	Weak transcription	Fetal Lung	lung
16	chr10:44102800-44111600	Weak transcription	Left Ventricle	heart
17	chr10:44102800-44111800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr10:44102800-44111800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr10:44102800-44111800	Weak transcription	Brain Germinal Matrix	brain
20	chr10:44102800-44111800	Weak transcription	Brain Substantia Nigra	brain
21	chr10:44102800-44111800	Weak transcription	Fetal Kidney	kidney
22	chr10:44102800-44111800	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr10:44102800-44111800	Weak transcription	Right Ventricle	heart
24	chr10:44102800-44118800	Weak transcription	Fetal Heart	heart
25	chr10:44103000-44109600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr10:44103000-44111200	Weak transcription	Fetal Brain Female	brain
27	chr10:44103000-44111400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
28	chr10:44103000-44111400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr10:44103000-44111400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
30	chr10:44103000-44111600	Weak transcription	Fetal Brain Male	brain
31	chr10:44103000-44111800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
32	chr10:44103000-44111800	Weak transcription	Brain Cingulate Gyrus	brain
33	chr10:44103000-44111800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr10:44103000-44111800	Weak transcription	Colonic Mucosa	Colon
35	chr10:44103000-44112200	Weak transcription	Brain Angular Gyrus	brain
36	chr10:44103600-44109800	Strong transcription	Fetal Intestine Large	intestine
37	chr10:44103800-44109200	Strong transcription	HUES64 Cell Line	embryonic stem cell
38	chr10:44104000-44109200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr10:44104200-44109200	Strong transcription	Primary T helper cells PMA-I stimulated	--
40	chr10:44104400-44109800	Strong transcription	HUES6 Cell Line	embryonic stem cell
41	chr10:44104400-44110200	Strong transcription	Primary T helper cells fromperipheralblood	blood
42	chr10:44104600-44111800	Weak transcription	Pancreas	Pancrea
43	chr10:44104800-44111800	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr10:44105000-44109400	Weak transcription	Psoas Muscle	Psoas
45	chr10:44105400-44109200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr10:44105400-44109800	Weak transcription	Fetal Stomach	stomach
47	chr10:44105400-44111000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
48	chr10:44105600-44109800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr10:44105600-44109800	Weak transcription	Sigmoid Colon	Sigmoid Colon
50	chr10:44105600-44111200	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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