Variant report

Variant	rs12571090
Chromosome Location	chr10:6162538-6162539
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:6162399..6164307-chr10:6234553..6236365,2	K562	blood:
2	chr10:6158099..6160276-chr10:6162186..6164567,3	K562	blood:
3	chr10:6161419..6164207-chr10:6176225..6178113,3	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1073646	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10905773	0.89[ASN][1000 genomes]
rs11256667	0.86[ASN][1000 genomes]
rs11256848	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11256860	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11256879	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12220852	0.86[ASN][1000 genomes]
rs12268391	0.83[EUR][1000 genomes]
rs2274358	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2274359	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4747865	0.93[ASN][1000 genomes]
rs4749957	0.82[ASN][1000 genomes]
rs6602450	0.92[EUR][1000 genomes]
rs7894037	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7899110	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	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
2	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
3	nsv1040721	chr10:6155144-6322566	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv540476	chr10:6155144-6322566	Genic enhancers Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	nsv1054044	chr10:6155144-6487217	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh 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	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6154400-6166400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr10:6156800-6162600	Weak transcription	Esophagus	oesophagus
3	chr10:6156800-6162600	Weak transcription	Ovary	ovary
4	chr10:6157000-6162600	Weak transcription	Small Intestine	intestine
5	chr10:6157000-6164200	Weak transcription	HepG2	liver
6	chr10:6157000-6166400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr10:6157000-6170800	Weak transcription	Gastric	stomach
8	chr10:6157600-6162600	Weak transcription	Aorta	Aorta
9	chr10:6157600-6162800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr10:6157600-6162800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr10:6157600-6162800	Weak transcription	Colon Smooth Muscle	Colon
12	chr10:6157600-6162800	Weak transcription	Fetal Stomach	stomach
13	chr10:6157600-6165400	Weak transcription	Brain Cingulate Gyrus	brain
14	chr10:6157600-6165400	Weak transcription	Brain Hippocampus Middle	brain
15	chr10:6157600-6166200	Weak transcription	Brain Angular Gyrus	brain
16	chr10:6157600-6166200	Weak transcription	Brain Substantia Nigra	brain
17	chr10:6157600-6166400	Weak transcription	Spleen	Spleen
18	chr10:6157600-6170400	Weak transcription	Lung	lung
19	chr10:6157600-6170400	Weak transcription	Thymus	Thymus
20	chr10:6157600-6171000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr10:6157600-6172000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr10:6157800-6170800	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr10:6158200-6162600	Weak transcription	Colonic Mucosa	Colon
24	chr10:6158200-6162800	Weak transcription	Fetal Lung	lung
25	chr10:6158200-6163400	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr10:6158200-6166400	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr10:6158200-6168800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr10:6158400-6162600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr10:6158400-6162600	Weak transcription	NHLF	lung
30	chr10:6158400-6162800	Weak transcription	Rectal Smooth Muscle	rectum
31	chr10:6158400-6169400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr10:6158600-6162800	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr10:6158600-6166600	Weak transcription	HUVEC	blood vessel
34	chr10:6158600-6166600	Weak transcription	K562	blood
35	chr10:6158600-6168000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr10:6158600-6170200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr10:6158600-6170200	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr10:6158800-6162800	Weak transcription	Stomach Smooth Muscle	stomach
39	chr10:6158800-6165400	Weak transcription	Primary neutrophils fromperipheralblood	blood
40	chr10:6159000-6170400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
41	chr10:6159000-6170800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr10:6159200-6162600	Weak transcription	HUES48 Cell Line	embryonic stem cell
43	chr10:6159200-6162600	Weak transcription	HUES6 Cell Line	embryonic stem cell
44	chr10:6159200-6162600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr10:6159200-6162800	Weak transcription	HUES64 Cell Line	embryonic stem cell
46	chr10:6159200-6162800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
47	chr10:6159200-6165200	Weak transcription	GM12878-XiMat	blood
48	chr10:6159200-6165400	Weak transcription	Primary monocytes fromperipheralblood	blood
49	chr10:6159200-6165400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
50	chr10:6159200-6165400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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