Variant report

Variant	rs10872920
Chromosome Location	chr14:39777295-39777296
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 74 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10131617	0.86[CHB][hapmap];0.91[JPT][hapmap]
rs10133417	0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs10134365	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs10137052	0.82[ASN][1000 genomes]
rs10137352	0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs10137905	0.86[CHB][hapmap];0.91[JPT][hapmap]
rs10138869	0.86[JPT][hapmap]
rs10151659	0.91[CHB][hapmap];0.84[CHD][hapmap];0.91[JPT][hapmap]
rs10162550	0.95[CHB][hapmap];0.85[CHD][hapmap];0.95[JPT][hapmap]
rs1040810	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11157053	1.00[ASW][hapmap];0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11157054	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11157057	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11157058	0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs11157059	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11620695	0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs11621330	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.95[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs11624144	0.85[ASN][1000 genomes]
rs11624839	0.81[ASN][1000 genomes]
rs11626679	1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs11627580	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs12432397	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12434140	0.96[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12587713	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs12588386	0.82[ASN][1000 genomes]
rs12883781	0.87[ASN][1000 genomes]
rs12894855	0.86[JPT][hapmap]
rs12896838	0.82[ASN][1000 genomes]
rs12897272	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1570132	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1594842	0.90[CHB][hapmap];0.85[CHD][hapmap];0.95[JPT][hapmap]
rs17109021	0.86[CHB][hapmap];0.91[JPT][hapmap]
rs17109028	0.86[CHB][hapmap];0.91[JPT][hapmap]
rs17109073	0.95[CHB][hapmap];0.83[CHD][hapmap];0.95[JPT][hapmap]
rs17109100	0.87[ASN][1000 genomes]
rs1897792	0.91[JPT][hapmap]
rs1950952	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1998194	0.91[CHB][hapmap];0.89[CHD][hapmap];0.95[JPT][hapmap]
rs2082635	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2274395	0.81[JPT][hapmap]
rs2274396	0.86[CHB][hapmap];0.95[JPT][hapmap]
rs2274399	0.90[CHB][hapmap];0.85[CHD][hapmap];0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs2415545	0.81[ASW][hapmap]
rs28619058	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3814860	0.81[JPT][hapmap]
rs4899227	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4902470	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4902528	0.94[ASW][hapmap];0.96[CEU][hapmap];0.82[CHB][hapmap];0.86[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.94[LWK][hapmap];0.91[MEX][hapmap];0.95[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4902569	0.86[JPT][hapmap]
rs4902570	0.86[JPT][hapmap]
rs4902622	0.81[JPT][hapmap]
rs62000670	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6571915	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6571919	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7140164	0.86[JPT][hapmap]
rs7143646	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs7148150	0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs7148377	0.82[JPT][hapmap]
rs7151835	0.84[ASN][1000 genomes]
rs7152341	0.81[JPT][hapmap]
rs7153482	0.86[JPT][hapmap]
rs718364	0.82[JPT][hapmap]
rs8003117	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8004716	0.91[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs8006321	0.81[JPT][hapmap]
rs8009651	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs8011173	0.81[ASW][hapmap]
rs8018717	0.83[ASW][hapmap];0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8019328	0.81[ASW][hapmap]
rs9322998	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs956108	0.82[ASN][1000 genomes]
rs956109	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[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	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
2	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:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:39738200-39813800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr14:39749400-39785400	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr14:39752600-39808200	Weak transcription	Stomach Mucosa	stomach
4	chr14:39755400-39783400	Strong transcription	Liver	Liver
5	chr14:39755600-39780400	Strong transcription	HepG2	liver
6	chr14:39755600-39797200	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr14:39756000-39788600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr14:39756200-39828400	Weak transcription	Brain Germinal Matrix	brain
9	chr14:39756600-39819600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr14:39756800-39797800	Strong transcription	Primary monocytes fromperipheralblood	blood
11	chr14:39757000-39783400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr14:39757400-39796000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr14:39757400-39843800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr14:39759400-39801800	Weak transcription	NHLF	lung
15	chr14:39762400-39801600	Weak transcription	Fetal Brain Male	brain
16	chr14:39764000-39786200	Weak transcription	Brain Substantia Nigra	brain
17	chr14:39764400-39785400	Weak transcription	Esophagus	oesophagus
18	chr14:39764600-39785600	Weak transcription	Gastric	stomach
19	chr14:39764600-39785600	Weak transcription	Psoas Muscle	Psoas
20	chr14:39764600-39790000	Weak transcription	Fetal Brain Female	brain
21	chr14:39764600-39808200	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr14:39764600-39818400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr14:39764800-39778200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr14:39764800-39802400	Weak transcription	Brain Cingulate Gyrus	brain
25	chr14:39764800-39805200	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr14:39765000-39785800	Weak transcription	Lung	lung
27	chr14:39765400-39785600	Weak transcription	Rectal Smooth Muscle	rectum
28	chr14:39765600-39789400	Weak transcription	HMEC	breast
29	chr14:39765600-39803800	Weak transcription	Placenta Amnion	Placenta Amnion
30	chr14:39765600-39807800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
31	chr14:39765800-39785400	Weak transcription	Brain Angular Gyrus	brain
32	chr14:39766000-39783000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr14:39766800-39790600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr14:39766800-39791800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr14:39767000-39785400	Weak transcription	Aorta	Aorta
36	chr14:39767000-39785400	Weak transcription	Ovary	ovary
37	chr14:39767000-39785400	Weak transcription	Spleen	Spleen
38	chr14:39767000-39785600	Weak transcription	Fetal Muscle Leg	muscle
39	chr14:39767000-39796000	Weak transcription	Thymus	Thymus
40	chr14:39767200-39801400	Weak transcription	Brain Hippocampus Middle	brain
41	chr14:39767200-39801600	Weak transcription	Right Ventricle	heart
42	chr14:39767200-39833800	Weak transcription	Small Intestine	intestine
43	chr14:39767400-39778000	Weak transcription	GM12878-XiMat	blood
44	chr14:39767400-39785200	Weak transcription	Brain Anterior Caudate	brain
45	chr14:39767600-39785400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
46	chr14:39768800-39785200	Weak transcription	NHEK	skin
47	chr14:39769600-39785600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr14:39769800-39796000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
49	chr14:39769800-39796000	Weak transcription	Dnd41	blood
50	chr14:39769800-39808000	Weak transcription	HUES48 Cell Line	embryonic stem cell

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