Variant report

Variant	rs7089889
Chromosome Location	chr10:178434-178435
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:176379..179219-chr10:182870..185240,2	K562	blood:
2	chr10:177983..180214-chr17:56709152..56710686,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000212195	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10736951	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs10794721	0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11250790	0.86[JPT][hapmap]
rs11250797	0.84[JPT][hapmap]
rs1367896	0.94[YRI][hapmap]
rs1476129	0.95[YRI][hapmap]
rs1476130	0.87[JPT][hapmap]
rs2379049	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2436024	0.95[YRI][hapmap]
rs2436025	0.89[YRI][hapmap]
rs2448364	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2448365	0.95[YRI][hapmap]
rs2448366	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs2448369	0.95[YRI][hapmap]
rs2448373	0.83[ASN][1000 genomes]
rs2448374	0.95[YRI][hapmap]
rs2448377	0.95[YRI][hapmap]
rs2448382	0.95[YRI][hapmap]
rs2448384	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs2496274	0.88[YRI][hapmap]
rs2496275	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs2496277	0.95[YRI][hapmap]
rs2496278	0.87[JPT][hapmap]
rs2496279	0.95[YRI][hapmap]
rs3123252	0.89[YRI][hapmap]
rs3132006	0.84[YRI][hapmap]
rs3740303	0.84[YRI][hapmap]
rs4275539	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4331015	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4369322	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4504990	0.82[AFR][1000 genomes]
rs4537685	0.80[AFR][1000 genomes]
rs4600135	0.89[YRI][hapmap]
rs4880809	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56335464	0.85[EUR][1000 genomes]
rs6560723	0.85[AFR][1000 genomes]
rs7476951	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7898275	0.82[AFR][1000 genomes]
rs7905732	0.95[YRI][hapmap]
rs7909028	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7918734	0.82[AFR][1000 genomes]
rs7919162	0.90[CHB][hapmap];0.93[JPT][hapmap]
rs7919436	0.91[CHB][hapmap];0.92[JPT][hapmap]
rs9419419	0.84[AFR][1000 genomes]
rs9419432	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9419493	0.93[ASN][1000 genomes]
rs9419496	0.83[AFR][1000 genomes];0.85[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	nsv531919	chr10:60001-668649	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1040332	chr10:72797-244561	Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1044775	chr10:72797-250662	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv1047868	chr10:72797-259003	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv1048232	chr10:72797-274675	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:174000-179200	Weak transcription	Right Atrium	heart
2	chr10:174000-179600	Weak transcription	Duodenum Mucosa	Duodenum
3	chr10:174000-179800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr10:174200-180000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr10:174400-178600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr10:174400-178600	Weak transcription	HUVEC	blood vessel
7	chr10:174400-179000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr10:174400-179400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr10:174400-179400	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr10:174400-179400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr10:174400-179600	Weak transcription	Primary hematopoietic stem cells	blood
12	chr10:174400-179600	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr10:174400-179800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr10:174400-179800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
15	chr10:174400-179800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr10:174600-179800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr10:175800-178600	Weak transcription	Colon Smooth Muscle	Colon
18	chr10:175800-178600	Weak transcription	Fetal Heart	heart
19	chr10:175800-179800	Weak transcription	Fetal Muscle Leg	muscle
20	chr10:176000-178600	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr10:176000-178600	Weak transcription	Stomach Smooth Muscle	stomach
22	chr10:176000-179800	Weak transcription	GM12878-XiMat	blood
23	chr10:176200-178600	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr10:176200-178600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr10:176200-179800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr10:176400-178600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr10:176400-178600	Weak transcription	NHEK	skin
28	chr10:176400-178800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
29	chr10:176400-179000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr10:176400-179800	Weak transcription	Placenta	Placenta
31	chr10:176800-179400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr10:177200-178600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr10:177400-178600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr10:177400-178600	Weak transcription	NHDF-Ad	bronchial
35	chr10:177600-178600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr10:177600-179400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr10:177800-178600	Weak transcription	Fetal Stomach	stomach
38	chr10:178200-178600	Enhancers	NH-A	brain
39	chr10:178200-179200	Enhancers	Dnd41	blood
40	chr10:178400-178600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr10:178400-178600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr10:178400-178600	Enhancers	Brain Cingulate Gyrus	brain
43	chr10:178400-178600	Enhancers	Skeletal Muscle Male	skeletal muscle
44	chr10:178400-178600	Enhancers	A549	lung
45	chr10:178400-178600	Enhancers	NHLF	lung
46	chr10:178400-178800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr10:178400-178800	Enhancers	Pancreas	Pancrea
48	chr10:178400-178800	Enhancers	Osteobl	bone
49	chr10:178400-179000	Enhancers	H1 Cell Line	embryonic stem cell
50	chr10:178400-179000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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