Variant report

Variant	rs10882813
Chromosome Location	chr10:98293392-98293393
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:98275887..98277539-chr10:98291073..98293689,2	K562	blood:

Extended variants
information (count: 107 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:106)

rs_ID	r²[population]
rs10128106	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1018604	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1018605	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1051450	0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs1063605	0.82[ASN][1000 genomes]
rs10736114	0.88[CEU][hapmap];1.00[JPT][hapmap]
rs10882809	0.94[ASN][1000 genomes]
rs10882811	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882815	0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs10882817	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882821	0.82[ASN][1000 genomes]
rs10882822	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs10882826	0.87[CEU][hapmap];0.92[JPT][hapmap]
rs10882828	0.90[CEU][hapmap];1.00[JPT][hapmap]
rs11188809	0.94[ASN][1000 genomes]
rs11188810	0.94[ASN][1000 genomes]
rs11188811	0.94[ASN][1000 genomes]
rs11188813	0.94[ASN][1000 genomes]
rs11188814	0.94[ASN][1000 genomes]
rs11188815	0.84[JPT][hapmap];0.94[ASN][1000 genomes]
rs11188817	0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs11188821	0.94[ASN][1000 genomes]
rs11188822	0.86[JPT][hapmap];0.94[ASN][1000 genomes]
rs11188825	0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs11188827	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11188831	0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs11188832	0.85[ASN][1000 genomes]
rs11188833	0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs11188842	0.82[ASN][1000 genomes]
rs11188844	0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs11188853	0.83[ASN][1000 genomes]
rs11188856	0.91[CEU][hapmap];1.00[JPT][hapmap]
rs1132913	0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs1132914	0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs1156035	0.94[ASN][1000 genomes]
rs1156036	0.94[ASN][1000 genomes]
rs11814010	0.94[ASN][1000 genomes]
rs12218847	0.94[ASN][1000 genomes]
rs12219275	0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs12220047	0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs12221143	0.94[ASN][1000 genomes]
rs12221262	0.94[ASN][1000 genomes]
rs12414612	0.84[JPT][hapmap];0.94[ASN][1000 genomes]
rs12415048	0.94[ASN][1000 genomes]
rs12416646	0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs12761817	0.94[ASN][1000 genomes]
rs12766248	0.94[ASN][1000 genomes]
rs12775533	0.84[JPT][hapmap];0.88[ASN][1000 genomes]
rs12776810	0.82[ASN][1000 genomes]
rs12779720	0.82[JPT][hapmap];0.94[ASN][1000 genomes]
rs1324255	0.84[JPT][hapmap];0.94[ASN][1000 genomes]
rs1324256	0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs1324258	1.00[CEU][hapmap]
rs1324259	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1324261	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1408367	0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs17391547	0.94[ASN][1000 genomes]
rs17482382	0.94[ASN][1000 genomes]
rs1983831	0.92[JPT][hapmap]
rs2011190	0.94[ASN][1000 genomes]
rs2025451	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2031326	0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs2031329	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2861555	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs33964467	0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs35779764	0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs3689	0.84[JPT][hapmap];0.94[ASN][1000 genomes]
rs3748234	1.00[JPT][hapmap]
rs3748235	0.92[JPT][hapmap]
rs3748237	0.82[ASN][1000 genomes]
rs3789957	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3789958	0.94[ASN][1000 genomes]
rs3818389	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4485036	0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs4534508	0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs4917742	0.88[CEU][hapmap];1.00[JPT][hapmap]
rs4919029	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4919032	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4919037	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4919040	0.81[CEU][hapmap];0.85[CHB][hapmap]
rs61858494	0.94[ASN][1000 genomes]
rs61859300	0.82[ASN][1000 genomes]
rs7069429	0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs7070686	0.82[ASN][1000 genomes]
rs7071044	0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs7071224	0.84[JPT][hapmap];0.94[ASN][1000 genomes]
rs7071881	0.82[ASN][1000 genomes]
rs7074516	0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs7082873	0.81[JPT][hapmap];0.85[ASN][1000 genomes]
rs7085389	0.82[ASN][1000 genomes]
rs7086213	0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs7086240	0.94[ASN][1000 genomes]
rs7087478	0.94[ASN][1000 genomes]
rs7091606	0.83[JPT][hapmap]
rs7097291	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7101320	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs713251	0.94[ASN][1000 genomes]
rs7448	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7914154	1.00[JPT][hapmap]
rs7919739	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8578	0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs912480	0.87[CEU][hapmap];1.00[JPT][hapmap]
rs927639	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9633703	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9664749	0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs9664955	0.94[ASN][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	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10882813	NPM1P26	cis	Adipose Subcutaneous	GTEx
rs10882813	NPM1P26	cis	Esophagus Muscularis	GTEx
rs10882813	NPM1P26	cis	Stomach	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98274200-98303600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr10:98274200-98314000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr10:98274200-98328600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr10:98274200-98328600	Weak transcription	Pancreas	Pancrea
5	chr10:98274200-98331200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr10:98274400-98303400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr10:98275200-98306600	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr10:98276400-98301600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr10:98276400-98319800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr10:98276400-98343200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr10:98277200-98295200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr10:98277400-98293400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr10:98277400-98315400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr10:98277800-98295800	Strong transcription	Monocytes-CD14+_RO01746	blood
15	chr10:98277800-98330400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr10:98278000-98293400	Strong transcription	Duodenum Mucosa	Duodenum
17	chr10:98278000-98295200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr10:98278400-98295200	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr10:98278600-98318800	Weak transcription	Small Intestine	intestine
20	chr10:98280400-98295400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr10:98280400-98295800	Strong transcription	Primary T helper cells fromperipheralblood	blood
22	chr10:98282400-98294000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr10:98283200-98300600	Weak transcription	Fetal Stomach	stomach
24	chr10:98283400-98293600	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr10:98283400-98300600	Weak transcription	Fetal Intestine Small	intestine
26	chr10:98284200-98293400	Strong transcription	HUES64 Cell Line	embryonic stem cell
27	chr10:98284200-98294200	Strong transcription	Primary B cells from peripheral blood	blood
28	chr10:98284400-98294000	Strong transcription	Fetal Intestine Large	intestine
29	chr10:98284400-98295000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr10:98284600-98293600	Strong transcription	Fetal Thymus	thymus
31	chr10:98284600-98293800	Strong transcription	Primary T cells fromperipheralblood	blood
32	chr10:98284800-98293400	Strong transcription	HUES48 Cell Line	embryonic stem cell
33	chr10:98284800-98293400	Strong transcription	Placenta	Placenta
34	chr10:98284800-98293400	Strong transcription	NHDF-Ad	bronchial
35	chr10:98285000-98295000	Strong transcription	NH-A	brain
36	chr10:98285000-98295600	Strong transcription	HSMM	muscle
37	chr10:98285400-98293400	Strong transcription	Skeletal Muscle Female	skeletal muscle
38	chr10:98286200-98323000	Weak transcription	Lung	lung
39	chr10:98286600-98300800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr10:98286600-98306400	Weak transcription	Brain Substantia Nigra	brain
41	chr10:98286600-98306400	Weak transcription	Right Ventricle	heart
42	chr10:98286600-98306800	Weak transcription	Fetal Brain Male	brain
43	chr10:98286600-98338400	Weak transcription	Aorta	Aorta
44	chr10:98286600-98339400	Weak transcription	Brain Angular Gyrus	brain
45	chr10:98286600-98345600	Weak transcription	Esophagus	oesophagus
46	chr10:98287000-98303400	Weak transcription	Brain Cingulate Gyrus	brain
47	chr10:98287800-98293400	Strong transcription	HepG2	liver
48	chr10:98288000-98298600	Weak transcription	Fetal Kidney	kidney
49	chr10:98288000-98302600	Weak transcription	Primary neutrophils fromperipheralblood	blood
50	chr10:98288000-98305600	Weak transcription	Brain Inferior Temporal Lobe	brain

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