Variant report

Variant	rs10899159
Chromosome Location	chr11:75864577-75864578
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:75864249..75865220-chr11:76029478..76030050,2	MCF-7	breast:
2	chr11:75864528..75867031-chr11:75871798..75873454,2	K562	blood:
3	chr11:75679377..75681059-chr11:75863070..75865584,2	MCF-7	breast:
4	chr11:75855694..75857259-chr11:75861740..75864650,2	K562	blood:

Extended variants
information (count: 8 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs10899163	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4639959	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs594913	0.95[EUR][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	nsv394	chr11:75820547-75865777	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
2	nsv1049039	chr11:75827548-76023665	Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Enhancers Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	nsv1051472	chr11:75851880-75922608	Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv1037940	chr11:75855316-75909619	Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv897926	chr11:75862571-76004202	Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10899159	ARHGEF17	cis	parietal	SCAN
rs10899159	NUMA1	cis	cerebellum	SCAN
rs10899159	CLPB	cis	parietal	SCAN

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:75833400-75872800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr11:75862800-75864600	Enhancers	Sigmoid Colon	Sigmoid Colon
3	chr11:75862800-75865000	Enhancers	Pancreas	Pancrea
4	chr11:75862800-75869200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr11:75863000-75864800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr11:75863000-75865000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr11:75863000-75865000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
8	chr11:75863000-75865200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
9	chr11:75863200-75865000	Enhancers	Spleen	Spleen
10	chr11:75863200-75865000	Flanking Active TSS	HepG2	liver
11	chr11:75863600-75865000	Enhancers	Placenta	Placenta
12	chr11:75863600-75865200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr11:75863800-75864600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr11:75863800-75864600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
15	chr11:75863800-75864600	Enhancers	Primary T helper cells PMA-I stimulated	--
16	chr11:75863800-75864600	Enhancers	Primary T helper cells fromperipheralblood	blood
17	chr11:75863800-75864600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr11:75863800-75864600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
19	chr11:75863800-75864600	Enhancers	Fetal Intestine Large	intestine
20	chr11:75863800-75864600	Bivalent Enhancer	Fetal Stomach	stomach
21	chr11:75863800-75864800	Enhancers	Brain Cingulate Gyrus	brain
22	chr11:75863800-75864800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
23	chr11:75863800-75864800	Enhancers	Fetal Thymus	thymus
24	chr11:75863800-75865000	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr11:75863800-75865000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr11:75863800-75865000	Enhancers	Primary B cells from peripheral blood	blood
27	chr11:75863800-75865000	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr11:75863800-75865000	Enhancers	Colonic Mucosa	Colon
29	chr11:75863800-75865000	Enhancers	Fetal Lung	lung
30	chr11:75863800-75865000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
31	chr11:75863800-75865000	Enhancers	Rectal Mucosa Donor 31	rectum
32	chr11:75863800-75865000	Enhancers	Skeletal Muscle Male	skeletal muscle
33	chr11:75863800-75865000	Enhancers	HMEC	breast
34	chr11:75863800-75865000	Enhancers	NHEK	skin
35	chr11:75863800-75865200	Enhancers	Primary T helper naive cells from peripheral blood	blood
36	chr11:75863800-75865200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr11:75863800-75865200	Enhancers	Placenta Amnion	Placenta Amnion
38	chr11:75863800-75865200	Enhancers	NHDF-Ad	bronchial
39	chr11:75863800-75865400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr11:75863800-75865800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr11:75863800-75865800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr11:75864000-75864600	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
43	chr11:75864000-75864600	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
44	chr11:75864000-75864600	Enhancers	Primary B cells from cord blood	blood
45	chr11:75864000-75864600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr11:75864000-75864600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr11:75864000-75864600	Enhancers	NH-A	brain
48	chr11:75864000-75864800	Enhancers	Primary hematopoietic stem cells short term culture	blood
49	chr11:75864000-75865000	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
50	chr11:75864000-75865000	Enhancers	Brain Inferior Temporal Lobe	brain

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