Variant report

Variant	rs72772390
Chromosome Location	chr10:5849917-5849918
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:5830218..5833166-chr10:5848485..5851225,2	K562	blood:
2	chr10:5822061..5824683-chr10:5847855..5850406,3	K562	blood:
3	chr10:5831602..5838072-chr10:5842540..5850784,8	MCF-7	breast:
4	chr10:5830187..5831718-chr10:5849725..5851751,2	K562	blood:
5	chr10:5849264..5850852-chr10:5930459..5932960,2	MCF-7	breast:
6	chr10:5839916..5843685-chr10:5848628..5853676,5	K562	blood:

Variant related genes	Relation type
ENSG00000134452	Chromatin interaction
ENSG00000134461	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs1046393	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1129614	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1858446	0.95[AFR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2890364	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3736461	0.85[EUR][1000 genomes]
rs3793707	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs45575338	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4748572	0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs55659521	0.81[EUR][1000 genomes]
rs55834056	0.81[EUR][1000 genomes]
rs55837307	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs55873293	0.82[EUR][1000 genomes]
rs55910451	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs56033057	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs56251728	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs58859669	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59007376	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7095103	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72772354	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72772355	0.90[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs72772358	0.95[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs72772376	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72772400	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72774070	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72774075	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72774077	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72774078	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs74116316	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534685	chr10:4914018-5853324	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
2	esv34147	chr10:5726821-6105717	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	esv34061	chr10:5726821-6225187	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
4	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
5	nsv831775	chr10:5804335-6000849	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
6	nsv515935	chr10:5820394-5869839	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
7	nsv549896	chr10:5820394-5880066	Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs72772390	GDI2	cis	Artery Tibial	GTEx
rs72772390	GDI2	cis	Whole Blood	GTEx

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:5818000-5854200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:5827800-5851200	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr10:5834600-5853600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr10:5837800-5854200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr10:5838000-5851400	Weak transcription	Brain Cingulate Gyrus	brain
6	chr10:5838600-5851200	Weak transcription	Brain Angular Gyrus	brain
7	chr10:5838600-5851400	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr10:5838800-5851600	Weak transcription	Fetal Brain Male	brain
9	chr10:5840600-5851800	Weak transcription	Colonic Mucosa	Colon
10	chr10:5840800-5851600	Weak transcription	Fetal Kidney	kidney
11	chr10:5841400-5851400	Weak transcription	Aorta	Aorta
12	chr10:5841400-5851800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr10:5841400-5853400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr10:5841600-5851400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr10:5841600-5853400	Weak transcription	Esophagus	oesophagus
16	chr10:5841800-5851200	Weak transcription	Brain Germinal Matrix	brain
17	chr10:5842000-5851200	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr10:5842400-5851400	Weak transcription	Rectal Smooth Muscle	rectum
19	chr10:5842600-5850000	Weak transcription	Brain Hippocampus Middle	brain
20	chr10:5842600-5851400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr10:5842600-5851600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr10:5842600-5853200	Weak transcription	Stomach Smooth Muscle	stomach
23	chr10:5842600-5853200	Weak transcription	HSMMtube	muscle
24	chr10:5842800-5850800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr10:5842800-5851600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr10:5843200-5851400	Weak transcription	NHLF	lung
27	chr10:5843400-5851600	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr10:5843600-5854400	Weak transcription	Gastric	stomach
29	chr10:5844000-5850000	Weak transcription	Pancreas	Pancrea
30	chr10:5845000-5850000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr10:5845000-5851800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr10:5845200-5851200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
33	chr10:5846400-5850200	Strong transcription	Fetal Thymus	thymus
34	chr10:5846600-5851000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr10:5846600-5852000	Genic enhancers	Primary B cells from peripheral blood	blood
36	chr10:5846800-5851400	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr10:5847000-5850400	Genic enhancers	Primary T cells fromperipheralblood	blood
38	chr10:5847200-5851200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr10:5847400-5850000	Enhancers	Colon Smooth Muscle	Colon
40	chr10:5847400-5850400	Genic enhancers	Liver	Liver
41	chr10:5847600-5854600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr10:5847800-5850000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr10:5847800-5850000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr10:5847800-5850000	Weak transcription	Fetal Stomach	stomach
45	chr10:5847800-5851000	Weak transcription	Thymus	Thymus
46	chr10:5847800-5851400	Weak transcription	Osteobl	bone
47	chr10:5848000-5850000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr10:5848000-5850000	Weak transcription	Sigmoid Colon	Sigmoid Colon
49	chr10:5848000-5851200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr10:5848000-5851600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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