Variant report

Variant	rs17517669
Chromosome Location	chr10:96102402-96102403
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	chr10:96102107..96103794-chr10:96104177..96107065,2	K562	blood:

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs11814451	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11817642	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12255683	0.85[CEU][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12766693	0.81[EUR][1000 genomes]
rs12773803	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12774398	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12778016	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12780240	1.00[ASN][1000 genomes]
rs12781422	0.82[EUR][1000 genomes]
rs12781481	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12781628	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12782263	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12783744	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12783751	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1678	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17438643	1.00[CEU][hapmap];0.93[YRI][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17438706	1.00[CEU][hapmap];0.89[YRI][hapmap];0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17439123	1.00[CEU][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17516758	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17516904	1.00[CEU][hapmap];0.84[YRI][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17517368	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17517515	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17517578	0.85[CEU][hapmap];0.84[YRI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3203713	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34032820	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34053022	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34156870	1.00[ASN][1000 genomes]
rs34573359	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34818536	1.00[ASN][1000 genomes]
rs34999028	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35058175	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35084709	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35247409	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35258481	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35348430	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35446195	0.82[EUR][1000 genomes]
rs35658839	1.00[ASN][1000 genomes]
rs4394764	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57178050	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71480900	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71482303	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71482304	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71482305	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71482306	1.00[ASN][1000 genomes]
rs72812701	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1036676	chr10:95851376-96103876	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	esv2761616	chr10:95966768-96303701	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv831946	chr10:96055190-96226438	Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
5	esv1819509	chr10:96064300-96361776	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17517669	NOC3L	cis	Heart Left Ventricle	GTEx

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96031800-96121000	Weak transcription	Stomach Mucosa	stomach
2	chr10:96043600-96121000	Weak transcription	Psoas Muscle	Psoas
3	chr10:96075200-96112200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr10:96078200-96121600	Weak transcription	Fetal Brain Male	brain
5	chr10:96080400-96105200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr10:96080400-96121000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr10:96080800-96102600	Strong transcription	Primary B cells from peripheral blood	blood
8	chr10:96081000-96105600	Strong transcription	Duodenum Mucosa	Duodenum
9	chr10:96081000-96118200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr10:96081200-96118400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
11	chr10:96081600-96117400	Strong transcription	NH-A	brain
12	chr10:96081600-96121000	Strong transcription	HUES6 Cell Line	embryonic stem cell
13	chr10:96081600-96121000	Strong transcription	HUES64 Cell Line	embryonic stem cell
14	chr10:96081800-96117400	Strong transcription	HSMM	muscle
15	chr10:96081800-96121000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr10:96081800-96121000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr10:96082000-96118400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr10:96082200-96113000	Weak transcription	Esophagus	oesophagus
19	chr10:96082400-96121000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
20	chr10:96082600-96109600	Weak transcription	Spleen	Spleen
21	chr10:96083000-96119800	Strong transcription	Primary T helper cells PMA-I stimulated	--
22	chr10:96083200-96118800	Strong transcription	Monocytes-CD14+_RO01746	blood
23	chr10:96084400-96118200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr10:96085000-96121000	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr10:96085000-96122200	Weak transcription	Gastric	stomach
26	chr10:96085400-96109000	Weak transcription	Ovary	ovary
27	chr10:96086200-96121200	Strong transcription	HUES48 Cell Line	embryonic stem cell
28	chr10:96086800-96103400	Strong transcription	GM12878-XiMat	blood
29	chr10:96086800-96105400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr10:96087600-96118600	Strong transcription	Primary T cells fromperipheralblood	blood
31	chr10:96087600-96121200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr10:96088000-96118000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr10:96088200-96121800	Weak transcription	Aorta	Aorta
34	chr10:96088800-96108000	Weak transcription	Primary neutrophils fromperipheralblood	blood
35	chr10:96089000-96106600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
36	chr10:96089000-96120600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr10:96089200-96119800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr10:96089400-96105400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr10:96089600-96121000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
40	chr10:96089800-96105000	Strong transcription	Fetal Muscle Trunk	muscle
41	chr10:96089800-96107000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr10:96089800-96107200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
43	chr10:96089800-96117600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr10:96089800-96119000	Strong transcription	Primary T helper cells fromperipheralblood	blood
45	chr10:96089800-96119400	Strong transcription	H1 Cell Line	embryonic stem cell
46	chr10:96089800-96119400	Strong transcription	Primary monocytes fromperipheralblood	blood
47	chr10:96090000-96106800	Strong transcription	Adipose Nuclei	Adipose
48	chr10:96090200-96108600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr10:96090400-96106000	Strong transcription	Osteobl	bone
50	chr10:96090400-96121000	Weak transcription	Fetal Heart	heart

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