Variant report

Variant	rs10829064
Chromosome Location	chr10:27072989-27072990
allele	G/T
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	BATF	chr10:27072771-27073010	GM12878	blood:	n/a	chr10:27072862-27072873
2	WRNIP1	chr10:27072528-27073105	GM12878	blood:	n/a	n/a
3	POLR2A	chr10:27072857-27073181	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr10:27070974..27073894-chr10:27148134..27150716,3	MCF-7	breast:
2	chr10:27067079..27070597-chr10:27072640..27074844,4	K562	blood:
3	chr10:27071993..27074236-chr10:27148436..27150093,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000223027	TF binding region
ENSG00000136754	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs1031858	1.00[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap];0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10741117	0.92[CEU][hapmap];0.88[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10741119	1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10741121	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10764638	0.96[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10764639	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10764641	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10764643	1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10829063	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10829071	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12221102	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1324637	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1409130	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1542553	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1543849	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1590445	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1998631	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1998632	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1998634	0.95[CEU][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2031562	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2148110	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2182293	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2368184	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2368185	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2505969	0.82[EUR][1000 genomes]
rs3802609	0.80[CEU][hapmap]
rs3802612	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3916988	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4376804	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4747575	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4749185	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6482575	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7078119	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7078227	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7895417	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7895559	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7907630	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7915128	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[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	esv3415799	chr10:26929831-27233591	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv933544	chr10:27005220-27111998	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv831812	chr10:27061506-27234267	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv971858	chr10:27066006-27157708	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv6132	chr10:27066081-27075522	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27044800-27082000	Weak transcription	Fetal Lung	lung
2	chr10:27051400-27082000	Weak transcription	Fetal Stomach	stomach
3	chr10:27058000-27079200	Weak transcription	Dnd41	blood
4	chr10:27064600-27074200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
5	chr10:27066200-27074600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr10:27066400-27074000	Enhancers	Primary T helper cells fromperipheralblood	blood
7	chr10:27066400-27074600	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr10:27066400-27075200	Enhancers	Primary T helper cells PMA-I stimulated	--
9	chr10:27066800-27073400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
10	chr10:27067200-27073000	Enhancers	Primary B cells from peripheral blood	blood
11	chr10:27068400-27079400	Weak transcription	Primary hematopoietic stem cells	blood
12	chr10:27068600-27073000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
13	chr10:27068600-27074200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr10:27069000-27073000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
15	chr10:27069200-27078800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr10:27069400-27073000	Enhancers	Small Intestine	intestine
17	chr10:27069400-27079600	Weak transcription	K562	blood
18	chr10:27069800-27075000	Enhancers	Primary T killer memory cells from peripheral blood	blood
19	chr10:27069800-27084600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr10:27070000-27074000	Enhancers	Brain Substantia Nigra	brain
21	chr10:27070200-27076600	Weak transcription	Fetal Muscle Leg	muscle
22	chr10:27070600-27073000	Weak transcription	Colon Smooth Muscle	Colon
23	chr10:27070600-27074400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr10:27070600-27082800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr10:27070800-27091800	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr10:27071000-27073200	Weak transcription	Right Atrium	heart
27	chr10:27071000-27073600	Weak transcription	Placenta	Placenta
28	chr10:27071000-27073800	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr10:27071000-27075000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr10:27071000-27075000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr10:27071000-27080600	Weak transcription	Fetal Intestine Large	intestine
32	chr10:27071000-27080800	Weak transcription	Duodenum Smooth Muscle	Duodenum
33	chr10:27071000-27082000	Weak transcription	Fetal Brain Male	brain
34	chr10:27071000-27083800	Weak transcription	Fetal Intestine Small	intestine
35	chr10:27071000-27084600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr10:27071200-27073000	Weak transcription	Ovary	ovary
37	chr10:27071200-27073000	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr10:27071200-27073200	Weak transcription	Primary T cells from cord blood	blood
39	chr10:27071200-27073200	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr10:27071200-27073600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr10:27071200-27073600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr10:27071200-27073600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr10:27071200-27073600	Weak transcription	Stomach Smooth Muscle	stomach
44	chr10:27071200-27073800	Weak transcription	NHLF	lung
45	chr10:27071200-27074000	Weak transcription	Rectal Mucosa Donor 31	rectum
46	chr10:27071200-27074600	Weak transcription	Duodenum Mucosa	Duodenum
47	chr10:27071200-27074600	Weak transcription	Left Ventricle	heart
48	chr10:27071200-27075000	Enhancers	NHEK	skin
49	chr10:27071200-27075600	Weak transcription	HUES48 Cell Line	embryonic stem cell
50	chr10:27071200-27075600	Weak transcription	HUES64 Cell Line	embryonic stem cell

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