Variant report

Variant	rs10826420
Chromosome Location	chr10:28496898-28496899
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SETDB1	chr10:28496630-28497231	U2OS	brain:	n/a	n/a

Variant related genes	Relation type
MPP7	TF binding region

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10508736	0.94[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10740785	0.95[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10740786	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10763645	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10763646	0.94[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10763647	0.93[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10763648	0.94[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10763649	0.94[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10763650	0.93[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10826414	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10826415	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10826417	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10826418	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10826419	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10826421	0.82[CHB][hapmap];0.87[JPT][hapmap]
rs10826422	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10826423	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10826424	0.94[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.89[YRI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11006907	0.83[JPT][hapmap]
rs11006910	0.82[JPT][hapmap]
rs11006913	0.82[JPT][hapmap]
rs11006917	0.94[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.84[YRI][hapmap];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12049636	0.93[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12221232	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12251587	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs12255686	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs12357915	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17831690	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1824172	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1824173	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1937807	0.94[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1937808	0.94[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1937809	0.94[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2477344	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2607539	0.83[CHB][hapmap];0.82[JPT][hapmap];0.94[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2607542	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2607543	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2607544	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2607545	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2607546	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2607548	0.81[CEU][hapmap]
rs2801833	0.94[CEU][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2801834	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2801835	0.94[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2801838	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2801845	0.81[CEU][hapmap]
rs2985513	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2985521	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2985524	0.81[CEU][hapmap]
rs2985525	0.81[CEU][hapmap]
rs2985529	0.81[CEU][hapmap]
rs2985530	0.81[CEU][hapmap]
rs2985533	0.81[CEU][hapmap]
rs2985535	0.94[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2997203	0.81[CEU][hapmap]
rs2997205	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2997210	0.94[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35494924	0.89[ASN][1000 genomes]
rs3901407	0.87[CHB][hapmap];0.87[JPT][hapmap]
rs3905706	0.87[CHB][hapmap];0.87[JPT][hapmap]
rs4018718	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4568902	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs4747617	0.81[CEU][hapmap]
rs7067826	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7068246	0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7068687	0.87[CHB][hapmap];0.86[JPT][hapmap]
rs7088552	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs7096944	0.94[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap]
rs72631847	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7893311	0.94[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7903957	0.81[CEU][hapmap]
rs7914949	0.81[CEU][hapmap]
rs7915273	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7922685	0.86[CHB][hapmap];0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 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	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
3	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
4	nsv831817	chr10:28369836-28539930	Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv1041555	chr10:28419399-29304934	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
6	nsv1037863	chr10:28419399-29378871	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
7	nsv540521	chr10:28419399-29378871	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
8	nsv6188	chr10:28489076-28514068	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28449800-28497000	Weak transcription	Fetal Intestine Small	intestine
2	chr10:28467600-28525600	Weak transcription	Aorta	Aorta
3	chr10:28485600-28504400	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr10:28487600-28497800	Weak transcription	HepG2	liver
5	chr10:28487600-28529000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr10:28488600-28500200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
7	chr10:28489800-28504400	Weak transcription	Esophagus	oesophagus
8	chr10:28491200-28523200	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr10:28491400-28497200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr10:28492000-28501000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr10:28492200-28497000	Weak transcription	Stomach Smooth Muscle	stomach
12	chr10:28492200-28497000	Weak transcription	HSMMtube	muscle
13	chr10:28492200-28504400	Weak transcription	Psoas Muscle	Psoas
14	chr10:28492200-28506800	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr10:28492400-28497000	Weak transcription	Monocytes-CD14+_RO01746	blood
16	chr10:28492600-28506400	Weak transcription	Colon Smooth Muscle	Colon
17	chr10:28492600-28507200	Weak transcription	Rectal Smooth Muscle	rectum
18	chr10:28493200-28499200	Weak transcription	Fetal Intestine Large	intestine
19	chr10:28494800-28497000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr10:28495000-28497000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr10:28495000-28497000	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr10:28495000-28497000	Weak transcription	Primary T cells from cord blood	blood
23	chr10:28495200-28497000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr10:28495800-28497000	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr10:28495800-28500000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr10:28496400-28497000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr10:28496400-28498400	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
28	chr10:28496600-28497600	Strong transcription	Primary T helper cells PMA-I stimulated	--
29	chr10:28496600-28497800	Weak transcription	Primary B cells from cord blood	blood
30	chr10:28496800-28497400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr10:28496800-28497800	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
32	chr10:28496800-28498200	Strong transcription	Primary T helper naive cells from peripheral blood	blood

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