Variant report

Variant	rs61999439
Chromosome Location	chr14:39609707-39609708
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	chr14:39606418..39609970-chr14:39637610..39641065,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000182400	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10459481	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10872915	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11558739	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11620885	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11620889	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11622021	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11628065	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12184985	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12432764	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12433305	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12434282	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12435383	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12436766	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17678595	0.83[ASN][1000 genomes]
rs17678780	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs1964841	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2273316	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2415534	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34417819	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35802696	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57049071	0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs57120608	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs61999361	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs61999428	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61999432	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61999433	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61999434	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61999436	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61999443	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61999444	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61999445	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62000580	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72673310	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs761808	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9322995	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9788627	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3429206	chr14:39160730-39648836	Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv1051247	chr14:39604035-39652789	Genic enhancers Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:39583800-39626000	Weak transcription	Spleen	Spleen
2	chr14:39584000-39615000	Weak transcription	Pancreas	Pancrea
3	chr14:39584000-39623600	Weak transcription	Esophagus	oesophagus
4	chr14:39584200-39610800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr14:39584200-39636000	Weak transcription	Small Intestine	intestine
6	chr14:39584200-39638600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr14:39584400-39617200	Weak transcription	Psoas Muscle	Psoas
8	chr14:39584400-39620800	Weak transcription	Colonic Mucosa	Colon
9	chr14:39584400-39626600	Weak transcription	Aorta	Aorta
10	chr14:39584600-39625800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr14:39586600-39610600	Strong transcription	HepG2	liver
12	chr14:39588600-39635400	Weak transcription	Fetal Brain Male	brain
13	chr14:39589200-39610000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr14:39589200-39618000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr14:39589200-39626400	Weak transcription	Fetal Heart	heart
16	chr14:39592600-39622200	Weak transcription	Right Ventricle	heart
17	chr14:39592800-39618000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr14:39592800-39626600	Weak transcription	NHLF	lung
19	chr14:39594000-39620800	Weak transcription	Hela-S3	cervix
20	chr14:39596200-39621200	Weak transcription	Brain Substantia Nigra	brain
21	chr14:39597800-39610000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr14:39598000-39612600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr14:39598600-39610600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
24	chr14:39598600-39618000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr14:39598800-39636200	Weak transcription	Stomach Mucosa	stomach
26	chr14:39601000-39611400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
27	chr14:39601200-39610600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr14:39602400-39610000	Strong transcription	Rectal Mucosa Donor 29	rectum
29	chr14:39602800-39610000	Strong transcription	Adipose Nuclei	Adipose
30	chr14:39602800-39610400	Strong transcription	Cortex derived primary cultured neurospheres	brain
31	chr14:39603000-39611600	Strong transcription	Fetal Muscle Trunk	muscle
32	chr14:39603600-39617200	Weak transcription	Left Ventricle	heart
33	chr14:39604200-39610200	Strong transcription	Fetal Intestine Large	intestine
34	chr14:39604200-39610600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr14:39604200-39617000	Weak transcription	NHDF-Ad	bronchial
36	chr14:39604400-39610800	Weak transcription	Primary neutrophils fromperipheralblood	blood
37	chr14:39604400-39635400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chr14:39604800-39622400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr14:39605000-39611000	Weak transcription	Placenta	Placenta
40	chr14:39605200-39621200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr14:39605800-39625200	Weak transcription	HSMMtube	muscle
42	chr14:39606200-39609800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr14:39606200-39610800	Strong transcription	Fetal Brain Female	brain
44	chr14:39606800-39621200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
45	chr14:39607000-39616800	Weak transcription	Placenta Amnion	Placenta Amnion
46	chr14:39607000-39617200	Weak transcription	Colon Smooth Muscle	Colon
47	chr14:39607000-39617800	Weak transcription	HSMM	muscle
48	chr14:39607000-39621200	Weak transcription	Brain Cingulate Gyrus	brain
49	chr14:39607000-39625400	Weak transcription	Fetal Kidney	kidney
50	chr14:39607200-39612000	Weak transcription	Liver	Liver

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