Variant report

Variant	rs10415024
Chromosome Location	chr19:37814724-37814725
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	chr19:37807596..37810287-chr19:37811527..37815374,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000181666	Chromatin interaction

Extended variants
information (count: 118 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:114)

rs_ID	r²[population]
rs1015848	0.84[EUR][1000 genomes]
rs1015849	1.00[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.84[EUR][1000 genomes]
rs1035479	0.84[EUR][1000 genomes]
rs10403582	0.82[EUR][1000 genomes]
rs10403613	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10404602	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10404920	1.00[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.86[YRI][hapmap];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10405064	1.00[CEU][hapmap];0.87[CHB][hapmap];0.84[JPT][hapmap];0.86[YRI][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10405325	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10405407	1.00[CEU][hapmap];0.89[JPT][hapmap];0.96[EUR][1000 genomes]
rs10406177	1.00[CEU][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes]
rs10407084	1.00[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.84[EUR][1000 genomes]
rs10409204	1.00[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.83[YRI][hapmap];0.86[EUR][1000 genomes]
rs10412043	0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10413602	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10414904	1.00[CEU][hapmap];0.90[JPT][hapmap];0.96[EUR][1000 genomes]
rs10415358	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10415937	1.00[CEU][hapmap];0.90[JPT][hapmap];0.96[EUR][1000 genomes]
rs10417503	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10417844	0.93[CEU][hapmap];0.84[JPT][hapmap];0.96[EUR][1000 genomes]
rs10420430	0.87[EUR][1000 genomes]
rs10420754	1.00[CEU][hapmap];0.89[JPT][hapmap]
rs10422074	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10422423	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10422667	0.84[EUR][1000 genomes]
rs10422967	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10424574	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10426297	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10426618	0.84[EUR][1000 genomes]
rs10426666	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10426699	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12104380	0.95[EUR][1000 genomes]
rs12104381	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12709812	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12709813	0.96[EUR][1000 genomes]
rs12972252	0.84[EUR][1000 genomes]
rs12979470	0.83[EUR][1000 genomes]
rs12981532	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12982333	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13343471	1.00[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.83[YRI][hapmap];0.86[EUR][1000 genomes]
rs13343485	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13343502	1.00[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.82[EUR][1000 genomes]
rs13345116	1.00[CEU][hapmap];0.90[JPT][hapmap];0.96[EUR][1000 genomes]
rs13345148	0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1373991	1.00[CEU][hapmap];0.89[JPT][hapmap];0.96[EUR][1000 genomes]
rs1382357	1.00[CEU][hapmap];0.90[JPT][hapmap]
rs1529957	0.87[CEU][hapmap];0.90[JPT][hapmap]
rs1559229	1.00[CEU][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes]
rs1823061	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2081096	1.00[CEU][hapmap];0.90[JPT][hapmap]
rs2112923	1.00[CEU][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes]
rs2126977	0.93[CEU][hapmap];0.90[JPT][hapmap]
rs2291004	0.93[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs2303131	1.00[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.83[YRI][hapmap];0.86[EUR][1000 genomes]
rs28402338	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28538699	0.82[EUR][1000 genomes]
rs28623164	0.83[EUR][1000 genomes]
rs2891699	1.00[CEU][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes]
rs34544865	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34603719	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35085437	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35777021	0.86[EUR][1000 genomes]
rs3745765	1.00[CEU][hapmap];0.89[JPT][hapmap];0.94[EUR][1000 genomes]
rs3760825	1.00[CEU][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes]
rs3803895	0.84[EUR][1000 genomes]
rs4417644	1.00[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.87[YRI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4452075	1.00[CEU][hapmap];0.90[JPT][hapmap];0.90[EUR][1000 genomes]
rs4801759	1.00[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.83[YRI][hapmap];0.84[EUR][1000 genomes]
rs4801803	1.00[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.83[YRI][hapmap];0.82[EUR][1000 genomes]
rs4802766	0.80[EUR][1000 genomes]
rs4803229	1.00[CEU][hapmap];0.90[JPT][hapmap];0.92[EUR][1000 genomes]
rs4803347	0.96[EUR][1000 genomes]
rs4803460	0.84[EUR][1000 genomes]
rs4803539	0.84[EUR][1000 genomes]
rs4969487	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57795776	0.85[EUR][1000 genomes]
rs6508711	0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6508713	0.89[EUR][1000 genomes]
rs6508714	0.89[EUR][1000 genomes]
rs6508715	0.89[EUR][1000 genomes]
rs6508716	0.97[EUR][1000 genomes]
rs6508719	1.00[CEU][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes]
rs6508732	0.93[CEU][hapmap];0.90[JPT][hapmap]
rs6508733	0.93[CEU][hapmap];0.90[JPT][hapmap]
rs67293224	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs713256	1.00[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.86[YRI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7246657	0.86[CEU][hapmap];0.95[JPT][hapmap]
rs7246993	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7247259	1.00[CEU][hapmap];0.90[JPT][hapmap];0.96[EUR][1000 genomes]
rs7248733	0.93[CEU][hapmap];0.90[JPT][hapmap]
rs7252099	0.86[EUR][1000 genomes]
rs7252325	0.83[EUR][1000 genomes]
rs7252346	1.00[CEU][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes]
rs7253091	1.00[CEU][hapmap];0.90[JPT][hapmap]
rs7253114	0.93[CEU][hapmap]
rs7255407	0.83[EUR][1000 genomes]
rs7255952	0.93[CEU][hapmap]
rs7255972	1.00[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.86[EUR][1000 genomes]
rs7256130	0.80[EUR][1000 genomes]
rs7257495	0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7257672	1.00[CEU][hapmap];0.95[JPT][hapmap];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7258692	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7259968	0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7408133	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7408446	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7408563	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8106839	1.00[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs8109632	0.83[EUR][1000 genomes]
rs8111782	1.00[CEU][hapmap];0.82[CHB][hapmap];0.85[JPT][hapmap];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8112011	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs8112610	0.80[EUR][1000 genomes]
rs9304566	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9676967	0.83[EUR][1000 genomes]
rs9917081	1.00[CEU][hapmap];0.82[CHB][hapmap];0.85[JPT][hapmap];0.87[YRI][hapmap];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv918028	chr19:37020645-38014526	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
2	nsv978811	chr19:37749967-37820517	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv2757695	chr19:37794850-38051606	Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	esv2758759	chr19:37794850-38051606	ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10415024	ZNF793	cis	lung	GTEx

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:37809200-37815800	Weak transcription	Gastric	stomach
2	chr19:37809200-37815800	Weak transcription	Spleen	Spleen
3	chr19:37809200-37818800	Weak transcription	Esophagus	oesophagus
4	chr19:37809200-37824800	Weak transcription	Stomach Mucosa	stomach
5	chr19:37809400-37815800	Weak transcription	Aorta	Aorta
6	chr19:37809400-37825000	Weak transcription	Fetal Thymus	thymus
7	chr19:37809400-37825000	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr19:37809600-37815600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr19:37809600-37816000	Weak transcription	Psoas Muscle	Psoas
10	chr19:37809600-37819200	Weak transcription	Brain Substantia Nigra	brain
11	chr19:37809600-37819400	Weak transcription	Pancreas	Pancrea
12	chr19:37809600-37824400	Weak transcription	NHDF-Ad	bronchial
13	chr19:37809600-37825000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr19:37809800-37815800	Weak transcription	Thymus	Thymus
15	chr19:37809800-37816600	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr19:37809800-37818400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr19:37809800-37820000	Weak transcription	HMEC	breast
18	chr19:37810000-37818400	Weak transcription	HUVEC	blood vessel
19	chr19:37810000-37819000	Weak transcription	Fetal Brain Female	brain
20	chr19:37810000-37819400	Weak transcription	Brain Germinal Matrix	brain
21	chr19:37810000-37819400	Weak transcription	NHEK	skin
22	chr19:37810000-37820000	Weak transcription	NHLF	lung
23	chr19:37810000-37825000	Weak transcription	Hela-S3	cervix
24	chr19:37810200-37815800	Weak transcription	Rectal Smooth Muscle	rectum
25	chr19:37810200-37821800	ZNF genes & repeats	A549	lung
26	chr19:37810400-37818400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr19:37810400-37821000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr19:37810400-37821600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr19:37810600-37815800	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr19:37810600-37818400	Weak transcription	Primary B cells from cord blood	blood
31	chr19:37810600-37824400	Weak transcription	Small Intestine	intestine
32	chr19:37810600-37824800	Weak transcription	Fetal Heart	heart
33	chr19:37810800-37815800	Weak transcription	Fetal Lung	lung
34	chr19:37810800-37816000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr19:37810800-37824200	Weak transcription	Pancreatic Islets	Pancreatic Islet
36	chr19:37811000-37821400	Strong transcription	Fetal Stomach	stomach
37	chr19:37811400-37815800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
38	chr19:37811600-37815000	Weak transcription	Cortex derived primary cultured neurospheres	brain
39	chr19:37811600-37819200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
40	chr19:37811600-37819200	Weak transcription	HSMM	muscle
41	chr19:37811600-37820200	Weak transcription	NH-A	brain
42	chr19:37811600-37821000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
43	chr19:37811600-37821200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
44	chr19:37811600-37825000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
45	chr19:37811800-37815800	Weak transcription	Fetal Kidney	kidney
46	chr19:37811800-37815800	Weak transcription	Right Ventricle	heart
47	chr19:37811800-37816400	Weak transcription	Brain Angular Gyrus	brain
48	chr19:37811800-37819400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr19:37811800-37819600	Weak transcription	HepG2	liver
50	chr19:37811800-37821600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland

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