Variant report

Variant	rs2025029
Chromosome Location	chr14:39762347-39762348
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10130584	0.85[ASN][1000 genomes]
rs10130959	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs10135713	0.82[AMR][1000 genomes]
rs10142118	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10143290	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10144680	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10148678	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10148762	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10150863	0.92[YRI][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1040811	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10483539	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10782392	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10872919	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11157055	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11844333	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11844337	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12434446	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2094275	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2099409	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2117338	0.86[EUR][1000 genomes]
rs2274398	1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2415548	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3783292	0.82[CEU][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4899219	1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs4899237	1.00[JPT][hapmap]
rs4902500	0.82[CEU][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6571914	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6571916	0.82[CEU][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6571917	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6571918	0.88[EUR][1000 genomes]
rs6571934	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7140427	0.82[ASN][1000 genomes]
rs7140561	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs7143289	0.89[ASN][1000 genomes]
rs7149131	1.00[JPT][hapmap]
rs7151017	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7156249	0.85[ASN][1000 genomes]
rs7158558	0.89[ASN][1000 genomes]
rs7158633	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7159584	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8010145	0.87[AMR][1000 genomes]
rs8010635	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8010826	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8012235	0.86[EUR][1000 genomes]
rs8019161	0.82[CEU][hapmap];0.89[AMR][1000 genomes];0.90[EUR][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	nsv1053133	chr14:39657535-39770729	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv1037183	chr14:39736939-39949233	Weak transcription Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv542048	chr14:39736939-39949233	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:39737800-39763800	Weak transcription	Gastric	stomach
2	chr14:39738000-39763800	Weak transcription	HSMM	muscle
3	chr14:39738200-39763800	Weak transcription	Brain Angular Gyrus	brain
4	chr14:39738200-39763800	Weak transcription	HSMMtube	muscle
5	chr14:39738200-39766200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr14:39738200-39813800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr14:39738600-39763800	Weak transcription	Brain Cingulate Gyrus	brain
8	chr14:39738800-39764800	Weak transcription	NHDF-Ad	bronchial
9	chr14:39739200-39764000	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr14:39739800-39763400	Weak transcription	Lung	lung
11	chr14:39739800-39766400	Weak transcription	Aorta	Aorta
12	chr14:39741200-39764200	Weak transcription	Spleen	Spleen
13	chr14:39742000-39763400	Weak transcription	Esophagus	oesophagus
14	chr14:39744600-39769800	Weak transcription	Pancreas	Pancrea
15	chr14:39745400-39764000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr14:39745600-39764000	Weak transcription	HMEC	breast
17	chr14:39746200-39776600	Weak transcription	K562	blood
18	chr14:39746400-39771200	Weak transcription	Fetal Heart	heart
19	chr14:39747200-39763800	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr14:39747800-39763600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr14:39749400-39763400	Weak transcription	Left Ventricle	heart
22	chr14:39749400-39763800	Weak transcription	Small Intestine	intestine
23	chr14:39749400-39764000	Weak transcription	Stomach Smooth Muscle	stomach
24	chr14:39749400-39764200	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr14:39749400-39766400	Weak transcription	Right Ventricle	heart
26	chr14:39749400-39785400	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr14:39749600-39763400	Weak transcription	Placenta	Placenta
28	chr14:39749600-39763800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr14:39749600-39763800	Weak transcription	Brain Substantia Nigra	brain
30	chr14:39749600-39765200	Weak transcription	HUVEC	blood vessel
31	chr14:39749600-39771200	Weak transcription	Fetal Kidney	kidney
32	chr14:39750800-39762400	Weak transcription	Hela-S3	cervix
33	chr14:39752200-39763800	Weak transcription	Rectal Smooth Muscle	rectum
34	chr14:39752400-39763200	Weak transcription	Fetal Muscle Trunk	muscle
35	chr14:39752400-39763600	Weak transcription	GM12878-XiMat	blood
36	chr14:39752400-39763800	Weak transcription	Brain Anterior Caudate	brain
37	chr14:39752600-39762400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr14:39752600-39763800	Weak transcription	Fetal Lung	lung
39	chr14:39752600-39764200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
40	chr14:39752600-39764200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr14:39752600-39769000	Weak transcription	Colon Smooth Muscle	Colon
42	chr14:39752600-39808200	Weak transcription	Stomach Mucosa	stomach
43	chr14:39753000-39764200	Weak transcription	A549	lung
44	chr14:39755400-39775800	Strong transcription	Primary neutrophils fromperipheralblood	blood
45	chr14:39755400-39783400	Strong transcription	Liver	Liver
46	chr14:39755600-39767600	Strong transcription	Primary T cells fromperipheralblood	blood
47	chr14:39755600-39780400	Strong transcription	HepG2	liver
48	chr14:39755600-39797200	Strong transcription	Monocytes-CD14+_RO01746	blood
49	chr14:39756000-39763600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
50	chr14:39756000-39764000	Weak transcription	Brain Hippocampus Middle	brain

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