Variant report

Variant	rs7078301
Chromosome Location	chr10:28349264-28349265
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10218925	0.88[CEU][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10219010	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10219011	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10740781	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10826389	0.88[EUR][1000 genomes]
rs10826390	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10826393	0.94[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.89[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11006815	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11006821	0.88[JPT][hapmap]
rs11006822	0.88[JPT][hapmap]
rs11006830	0.87[JPT][hapmap]
rs12217744	0.89[EUR][1000 genomes]
rs12253376	0.87[JPT][hapmap]
rs12415332	0.87[JPT][hapmap]
rs12570424	0.88[CEU][hapmap];0.94[CHB][hapmap];0.93[JPT][hapmap];0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17757838	0.84[JPT][hapmap]
rs3802520	0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs4747613	0.81[JPT][hapmap]
rs4749306	0.81[JPT][hapmap]
rs6481499	0.87[JPT][hapmap]
rs6481501	0.81[JPT][hapmap]
rs7077881	0.94[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7078263	0.94[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7905976	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7909706	0.81[JPT][hapmap]
rs7920857	0.94[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.84[YRI][hapmap];0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7920864	0.93[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.88[YRI][hapmap];0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7921052	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7921181	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv831815	chr10:28235661-28407533	Strong transcription Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv1052182	chr10:28259142-28361830	Strong transcription Weak transcription ZNF genes & repeats Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1042524	chr10:28290149-28506812	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
5	nsv831816	chr10:28304698-28493635	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv894988	chr10:28337570-28410989	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
7	nsv525448	chr10:28337570-28563732	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
8	nsv466855	chr10:28341783-28400835	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
9	nsv550284	chr10:28341783-28400835	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS	Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28336200-28349400	Weak transcription	Gastric	stomach
2	chr10:28341200-28350000	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr10:28341200-28377600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr10:28341800-28349800	Strong transcription	Primary monocytes fromperipheralblood	blood
5	chr10:28342600-28350000	Strong transcription	Primary T helper cells fromperipheralblood	blood
6	chr10:28344000-28355600	Weak transcription	Adipose Nuclei	Adipose
7	chr10:28344600-28364400	Weak transcription	Fetal Heart	heart
8	chr10:28345000-28354000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr10:28345600-28349600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr10:28346200-28375400	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr10:28346400-28350200	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr10:28346600-28355600	Weak transcription	HSMMtube	muscle
13	chr10:28346600-28364400	Weak transcription	HepG2	liver
14	chr10:28346800-28349400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr10:28346800-28349400	Weak transcription	Rectal Smooth Muscle	rectum
16	chr10:28347000-28349400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr10:28347000-28349600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr10:28347000-28353600	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr10:28347000-28355600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr10:28347000-28355600	Weak transcription	Primary hematopoietic stem cells	blood
21	chr10:28347000-28355600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr10:28347000-28361200	Weak transcription	Lung	lung
23	chr10:28347000-28363800	Weak transcription	Fetal Stomach	stomach
24	chr10:28347000-28364000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr10:28347000-28364000	Weak transcription	Pancreas	Pancrea
26	chr10:28347000-28364200	Weak transcription	Esophagus	oesophagus
27	chr10:28347000-28364600	Weak transcription	Duodenum Mucosa	Duodenum
28	chr10:28347000-28375200	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr10:28347000-28380400	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr10:28347000-28381000	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr10:28347000-28412200	Weak transcription	Left Ventricle	heart
32	chr10:28347000-28414600	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr10:28347200-28355400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr10:28347200-28364000	Weak transcription	Stomach Smooth Muscle	stomach
35	chr10:28347400-28364200	Weak transcription	Fetal Intestine Large	intestine
36	chr10:28347400-28374600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr10:28347400-28377000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chr10:28347400-28377200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr10:28347600-28355400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr10:28347600-28356400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr10:28347600-28364200	Weak transcription	Primary B cells from cord blood	blood
42	chr10:28348000-28381200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
43	chr10:28348200-28357800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr10:28348200-28364200	Weak transcription	Fetal Intestine Small	intestine
45	chr10:28348200-28365200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
46	chr10:28348400-28349600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr10:28348400-28355800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
48	chr10:28348400-28358800	Weak transcription	Primary T helper cells PMA-I stimulated	--
49	chr10:28348600-28349600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr10:28348600-28349600	Enhancers	Osteobl	bone

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