Variant report

Variant	rs60220138
Chromosome Location	chr17:38424942-38424943
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:38424758..38427740-chr17:38473719..38476591,2	MCF-7	breast:
2	chr17:38423076..38425248-chr17:38435315..38437633,3	K562	blood:

Variant related genes	Relation type
ENSG00000131759	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs11078939	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11078940	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12051734	0.89[EUR][1000 genomes]
rs12944717	0.81[ASN][1000 genomes]
rs13706	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs16965687	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1807273	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2077464	0.84[EUR][1000 genomes]
rs28537537	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28663197	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4077125	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4134994	0.84[EUR][1000 genomes]
rs4566234	0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs55656553	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs55835834	0.86[ASN][1000 genomes]
rs56029626	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57179137	0.82[EUR][1000 genomes]
rs58822685	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59018914	0.84[ASN][1000 genomes]
rs59406133	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs59490243	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59861136	0.83[ASN][1000 genomes]
rs6503539	0.92[ASN][1000 genomes]
rs67597966	0.82[ASN][1000 genomes]
rs7217852	0.81[EUR][1000 genomes]
rs72836634	0.82[ASN][1000 genomes]
rs72836635	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72836636	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72836639	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72836640	0.85[ASN][1000 genomes]
rs72836641	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72836642	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72836648	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72836651	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72836653	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72836656	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72836660	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7359537	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73983025	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8078204	0.84[ASN][1000 genomes]
rs8078226	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8080931	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9303286	0.89[EUR][1000 genomes]
rs9891694	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9891718	0.94[ASN][1000 genomes]
rs9892404	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9892946	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9893520	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9894625	0.97[EUR][1000 genomes]
rs9895163	0.94[ASN][1000 genomes]
rs9896312	0.87[AMR][1000 genomes]
rs9897092	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9904021	0.91[ASN][1000 genomes]
rs9904270	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9906409	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9908034	0.91[ASN][1000 genomes]
rs9908257	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9910197	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9910788	0.87[ASN][1000 genomes]
rs9911840	0.90[ASN][1000 genomes]
rs9912082	0.91[ASN][1000 genomes]
rs9914531	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9916460	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9916782	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][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	nsv833444	chr17:38242823-38437280	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	62 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:38407800-38429800	Weak transcription	Stomach Mucosa	stomach
2	chr17:38409600-38437400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr17:38409800-38434800	Strong transcription	Cortex derived primary cultured neurospheres	brain
4	chr17:38409800-38439400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr17:38411000-38438800	Strong transcription	Fetal Intestine Small	intestine
6	chr17:38411000-38439800	Strong transcription	Fetal Stomach	stomach
7	chr17:38412000-38430200	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr17:38412200-38425000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr17:38412200-38430200	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr17:38412200-38434800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr17:38412200-38438400	Strong transcription	Fetal Muscle Trunk	muscle
12	chr17:38412200-38439800	Strong transcription	Fetal Thymus	thymus
13	chr17:38412400-38425000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr17:38412400-38425200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr17:38412400-38425200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr17:38412400-38425200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr17:38412400-38425200	Strong transcription	Adipose Nuclei	Adipose
18	chr17:38412400-38425200	Strong transcription	Duodenum Mucosa	Duodenum
19	chr17:38412400-38425400	Strong transcription	Primary B cells from peripheral blood	blood
20	chr17:38412400-38425800	Strong transcription	Fetal Brain Female	brain
21	chr17:38412400-38430400	Strong transcription	Primary neutrophils fromperipheralblood	blood
22	chr17:38412400-38437600	Strong transcription	Primary T cells fromperipheralblood	blood
23	chr17:38412400-38438600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr17:38412400-38438600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr17:38412600-38425000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr17:38412600-38425200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
27	chr17:38412600-38425200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr17:38412600-38425200	Strong transcription	Stomach Smooth Muscle	stomach
29	chr17:38412600-38425600	Strong transcription	Sigmoid Colon	Sigmoid Colon
30	chr17:38412600-38428600	Strong transcription	Thymus	Thymus
31	chr17:38412600-38437600	Strong transcription	Placenta	Placenta
32	chr17:38412600-38438600	Strong transcription	Fetal Intestine Large	intestine
33	chr17:38412600-38439200	Strong transcription	Fetal Muscle Leg	muscle
34	chr17:38412600-38439200	Strong transcription	Lung	lung
35	chr17:38413000-38438800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr17:38414600-38430600	Strong transcription	Primary B cells from cord blood	blood
37	chr17:38415600-38430200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr17:38416000-38425200	Strong transcription	Primary T cells from cord blood	blood
39	chr17:38416200-38436400	Strong transcription	HUES64 Cell Line	embryonic stem cell
40	chr17:38416600-38425200	Strong transcription	NHEK	skin
41	chr17:38416600-38431000	Weak transcription	Fetal Brain Male	brain
42	chr17:38417400-38430000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr17:38417600-38439400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr17:38417800-38425200	Strong transcription	Placenta Amnion	Placenta Amnion
45	chr17:38419600-38429800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
46	chr17:38420400-38425200	Strong transcription	Liver	Liver
47	chr17:38420400-38439200	Strong transcription	Duodenum Smooth Muscle	Duodenum
48	chr17:38420600-38425200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr17:38420600-38425200	Strong transcription	Left Ventricle	heart
50	chr17:38420600-38425400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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