Variant report

Variant	rs3742606
Chromosome Location	chr14:64945089-64945090
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:64808415..64811842-chr14:64942853..64946477,3	K562	blood:
2	chr14:64936676..64945278-chr14:64966734..64972845,13	MCF-7	breast:
3	chr14:64852943..64855258-chr14:64944009..64946948,2	MCF-7	breast:
4	chr14:64810635..64811201-chr14:64944796..64945610,3	K562	blood:
5	chr14:64943497..64946226-chr14:64970959..64972915,2	K562	blood:
6	chr14:64932117..64934618-chr14:64944304..64946764,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000179841	Chromatin interaction
ENSG00000126804	Chromatin interaction
ENSG00000089775	Chromatin interaction
ENSG00000100714	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10131416	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10132969	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10133411	0.82[GIH][hapmap]
rs10133696	1.00[CEU][hapmap];0.97[GIH][hapmap];0.93[MEX][hapmap];0.97[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10133848	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10134530	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10136732	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10142879	1.00[CEU][hapmap];0.95[GIH][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10143839	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10145001	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10145005	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10145013	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10147522	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10150781	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10873173	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11158542	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.95[LWK][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs11158543	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11623457	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11625265	1.00[CEU][hapmap];0.97[GIH][hapmap];0.87[MEX][hapmap];0.97[TSI][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11626222	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11627387	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.97[GIH][hapmap];0.81[JPT][hapmap];0.87[MEX][hapmap];0.97[TSI][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11628221	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11845653	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11848179	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11849935	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11851236	0.91[EUR][1000 genomes]
rs12050238	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12050358	1.00[CEU][hapmap];0.97[GIH][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12385918	0.82[GIH][hapmap]
rs1453004	0.82[GIH][hapmap]
rs1453007	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1453009	0.82[GIH][hapmap]
rs1470851	1.00[CEU][hapmap];0.97[GIH][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1966865	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1980519	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1980520	1.00[CEU][hapmap];0.97[GIH][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1982440	0.85[GIH][hapmap]
rs2045024	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2123459	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2123460	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2198347	1.00[CEU][hapmap];0.97[GIH][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs28469649	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs28666045	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28730549	0.90[GIH][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28738919	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28766386	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28827477	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35115595	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3742608	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3783727	0.84[EUR][1000 genomes]
rs4632045	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57525201	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59577187	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61985663	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61985668	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61985706	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6573559	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.97[GIH][hapmap];0.80[JPT][hapmap];0.81[MEX][hapmap];0.97[TSI][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7160131	0.82[CEU][hapmap];0.86[MEX][hapmap]
rs7160634	0.87[GIH][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73265639	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73265640	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73265641	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs745686	0.90[GIH][hapmap];0.89[TSI][hapmap];0.85[EUR][1000 genomes]
rs926803	0.85[GIH][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9323450	1.00[CEU][hapmap];0.85[TSI][hapmap]
rs9323451	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9323452	0.95[AMR][1000 genomes];0.99[EUR][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	nsv902022	chr14:64926581-64958638	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs3742606	ZBTB25	cis	lymphoblastoid	seeQTL
rs3742606	ZBTB25	cis	cerebellum	SCAN
rs3742606	ZBTB1	cis	cerebellum	SCAN
rs3742606	ZBTB25	cis	multi-tissue	Pritchard
rs3742606	ZBTB25	cis	lung	GTEx
rs3742606	ZBTB25	cis	parietal	SCAN
rs3742606	ZBTB25	cis	Nerve Tibial	GTEx

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:64928200-64948000	Weak transcription	Hela-S3	cervix
2	chr14:64933000-64946000	Weak transcription	Left Ventricle	heart
3	chr14:64933000-64946600	Weak transcription	Fetal Thymus	thymus
4	chr14:64933000-64951000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr14:64933000-64951000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr14:64933000-64951600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr14:64933000-64951800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr14:64933000-64952000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr14:64933000-64953400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr14:64933000-64953600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr14:64933000-64953600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr14:64933000-64953600	Weak transcription	Lung	lung
13	chr14:64933000-64953600	Weak transcription	Ovary	ovary
14	chr14:64933000-64953600	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr14:64933000-64953600	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr14:64933000-64953600	Weak transcription	HSMM	muscle
17	chr14:64933000-64953600	Weak transcription	NHLF	lung
18	chr14:64933200-64951000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr14:64933200-64951000	Weak transcription	Primary B cells from peripheral blood	blood
20	chr14:64933200-64951000	Weak transcription	Stomach Smooth Muscle	stomach
21	chr14:64933200-64951600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr14:64933200-64951800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr14:64933200-64953600	Weak transcription	Primary B cells from cord blood	blood
24	chr14:64933200-64953600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr14:64933200-64953600	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr14:64933200-64953600	Weak transcription	NHEK	skin
27	chr14:64933200-64953800	Weak transcription	Fetal Brain Female	brain
28	chr14:64933200-64953800	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr14:64933200-64968400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr14:64933400-64946000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr14:64933400-64946400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr14:64933400-64953600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr14:64933400-64953600	Weak transcription	Brain Hippocampus Middle	brain
34	chr14:64933400-64953600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr14:64933400-64953600	Weak transcription	Fetal Stomach	stomach
36	chr14:64933400-64953600	Weak transcription	NH-A	brain
37	chr14:64933400-64968200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
38	chr14:64933600-64951600	Weak transcription	Brain Angular Gyrus	brain
39	chr14:64933600-64953600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr14:64933800-64950600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr14:64934000-64953600	Weak transcription	Thymus	Thymus
42	chr14:64934200-64953800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr14:64934400-64951000	Weak transcription	Liver	Liver
44	chr14:64934400-64953600	Weak transcription	Adipose Nuclei	Adipose
45	chr14:64934800-64951800	Weak transcription	Rectal Mucosa Donor 29	rectum
46	chr14:64935200-64951200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr14:64935200-64951600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
48	chr14:64935400-64947200	Weak transcription	Dnd41	blood
49	chr14:64935400-64951600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr14:64935600-64951800	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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