Variant report

Variant	rs3924657
Chromosome Location	chr6:144925555-144925556
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	chr6:144924380..144926238-chr6:144929068..144931608,2	K562	blood:
2	chr6:144924091..144927030-chr6:144935405..144937904,2	K562	blood:

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs1005974	0.82[CHB][hapmap];0.93[JPT][hapmap];0.88[ASN][1000 genomes]
rs10434891	0.88[JPT][hapmap]
rs11155357	0.90[ASN][1000 genomes]
rs11155361	0.93[CEU][hapmap];0.88[YRI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12204372	0.88[ASN][1000 genomes]
rs12214126	0.90[ASN][1000 genomes]
rs13191597	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13193448	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13195928	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13198102	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13201946	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13203229	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13203387	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13205040	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13207026	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13218121	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1534437	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1554814	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1590055	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17793810	1.00[CEU][hapmap];0.92[CHB][hapmap];0.94[JPT][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1830271	1.00[CEU][hapmap];0.92[CHB][hapmap];0.93[JPT][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]
rs1918744	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1918745	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1918746	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1918747	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1918748	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2178128	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34053805	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34095417	0.83[ASN][1000 genomes]
rs34504312	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34571592	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35161160	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35524567	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35904953	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3811099	0.94[CEU][hapmap];0.92[CHB][hapmap];0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs3924656	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[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]
rs4052725	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4075776	0.82[ASN][1000 genomes]
rs4146297	1.00[CEU][hapmap];0.91[CHB][hapmap];0.93[JPT][hapmap];0.81[EUR][1000 genomes]
rs4401687	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs4438980	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4582403	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs56039703	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56158631	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67767204	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6908795	1.00[CEU][hapmap];0.89[YRI][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6915390	1.00[CEU][hapmap];0.89[YRI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6918394	1.00[CEU][hapmap];0.89[YRI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6919793	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6920388	1.00[CEU][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6924812	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6938409	1.00[CEU][hapmap];0.89[YRI][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6938455	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6938776	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73001731	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73005504	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73005509	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73005511	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7740593	0.86[ASN][1000 genomes]
rs7753246	0.88[JPT][hapmap]
rs9376829	0.92[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9390177	1.00[CEU][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9390179	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9390180	0.81[CEU][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9390185	0.82[JPT][hapmap]
rs9403565	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9403566	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403569	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9403570	0.82[JPT][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9497023	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs952050	1.00[CEU][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs952051	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv1015228	chr6:144780458-144989321	Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv538462	chr6:144780458-144989321	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144881800-144937800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:144885800-144943400	Weak transcription	Ovary	ovary
3	chr6:144899600-144931800	Weak transcription	Esophagus	oesophagus
4	chr6:144904400-144931600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:144904400-144931800	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr6:144904600-144939800	Weak transcription	HSMMtube	muscle
7	chr6:144904800-144929000	Weak transcription	Left Ventricle	heart
8	chr6:144904800-144935400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr6:144908800-144947400	Weak transcription	HUVEC	blood vessel
10	chr6:144909400-144931000	Weak transcription	Aorta	Aorta
11	chr6:144914800-144929400	Weak transcription	Fetal Thymus	thymus
12	chr6:144914800-144937800	Weak transcription	HSMM	muscle
13	chr6:144914800-144960000	Weak transcription	Lung	lung
14	chr6:144915000-144934400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr6:144919600-144928000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr6:144921000-144928800	Weak transcription	HepG2	liver
17	chr6:144921800-144926200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr6:144922000-144928200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr6:144922000-144928800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr6:144922000-144929000	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr6:144922200-144927200	Weak transcription	Fetal Heart	heart
22	chr6:144922200-144927800	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr6:144922200-144938400	Weak transcription	Liver	Liver
24	chr6:144922400-144929000	Weak transcription	Adipose Nuclei	Adipose
25	chr6:144922400-144929400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
26	chr6:144922600-144925600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr6:144922600-144926400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
28	chr6:144922600-144928800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr6:144922600-144929800	Weak transcription	Fetal Lung	lung
30	chr6:144922600-144938600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr6:144922800-144929000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr6:144922800-144939000	Weak transcription	Fetal Muscle Leg	muscle
33	chr6:144923000-144928800	Weak transcription	Primary hematopoietic stem cells	blood
34	chr6:144923000-144929000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr6:144923000-144938000	Weak transcription	NHDF-Ad	bronchial
36	chr6:144923200-144928800	Weak transcription	Primary B cells from peripheral blood	blood
37	chr6:144923400-144927400	Weak transcription	Primary B cells from cord blood	blood
38	chr6:144923600-144929000	Weak transcription	Primary T cells fromperipheralblood	blood
39	chr6:144924000-144927200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr6:144924000-144929600	Weak transcription	Thymus	Thymus
41	chr6:144924000-144931600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
42	chr6:144924200-144926200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
43	chr6:144924600-144928800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
44	chr6:144924600-144929200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
45	chr6:144924800-144926200	Weak transcription	HUES48 Cell Line	embryonic stem cell
46	chr6:144924800-144928600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
47	chr6:144924800-144934600	Weak transcription	GM12878-XiMat	blood
48	chr6:144925000-144927200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
49	chr6:144925000-144927200	Weak transcription	Dnd41	blood
50	chr6:144925000-144929400	Weak transcription	Primary T cells from cord blood	blood

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