Variant report

Variant	rs2512370
Chromosome Location	chr11:86757881-86757882
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10792903	1.00[CHB][hapmap]
rs12270673	0.85[AMR][1000 genomes]
rs186198	1.00[YRI][hapmap]
rs2124577	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2124579	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.80[EUR][1000 genomes]
rs2374996	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2445537	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2445538	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2445543	0.92[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs2445549	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs2445552	0.96[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2445564	0.96[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2445565	0.85[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.83[ASN][1000 genomes]
rs2445570	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2445581	0.96[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2451066	0.80[EUR][1000 genomes]
rs2512335	0.80[EUR][1000 genomes]
rs2512347	0.89[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs2512364	0.92[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2512371	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2512373	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2512379	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2512392	0.85[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs2512478	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2512486	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2512493	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs2512498	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2512502	1.00[JPT][hapmap];0.89[YRI][hapmap];0.92[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2513206	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2513208	0.81[EUR][1000 genomes]
rs2513219	0.96[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2513220	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2513225	0.86[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs2513232	0.83[JPT][hapmap]
rs2513234	0.91[ASN][1000 genomes]
rs3740659	1.00[JPT][hapmap];0.89[YRI][hapmap];0.92[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs564932	0.89[YRI][hapmap]
rs7934461	0.85[AMR][1000 genomes]
rs921875	0.85[AMR][1000 genomes]
rs965467	0.96[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044081	chr11:86133641-86868560	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv541118	chr11:86133641-86868560	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv1037042	chr11:86586876-86978492	Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription ZNF genes & repeats Genic enhancers 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	16 gene(s)	inside rSNPs	diseases
4	nsv541119	chr11:86586876-86978492	Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	nsv898058	chr11:86754948-86889284	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv898059	chr11:86754948-86949369	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv1043562	chr11:86755535-87547185	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
8	nsv541120	chr11:86755535-87547185	Bivalent Enhancer Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
9	nsv1046288	chr11:86757573-87158571	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
10	esv3356021	chr11:86757854-86761352	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS	n/a	n/a	inside rSNPs	n/a

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86749600-86758200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr11:86749600-86766800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr11:86750000-86765800	Weak transcription	Placenta	Placenta
4	chr11:86750400-86760600	Weak transcription	Monocytes-CD14+_RO01746	blood
5	chr11:86750600-86759800	Weak transcription	Fetal Thymus	thymus
6	chr11:86750600-86760600	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr11:86750800-86758600	Weak transcription	HSMM	muscle
8	chr11:86750800-86759800	Weak transcription	HSMMtube	muscle
9	chr11:86750800-86760000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr11:86750800-86760200	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr11:86750800-86780600	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr11:86750800-86782000	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr11:86750800-86787400	Weak transcription	A549	lung
14	chr11:86751000-86760000	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr11:86751000-86786800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr11:86751000-86787400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr11:86751200-86762600	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr11:86751200-86785600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr11:86751400-86758400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr11:86751400-86759800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr11:86751400-86767800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
22	chr11:86751400-86786400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr11:86751600-86787000	Weak transcription	Aorta	Aorta
24	chr11:86752000-86768800	Weak transcription	Ovary	ovary
25	chr11:86752000-86768800	Weak transcription	Psoas Muscle	Psoas
26	chr11:86752200-86759800	Weak transcription	Fetal Brain Male	brain
27	chr11:86752200-86768800	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr11:86752400-86758200	Weak transcription	Brain Cingulate Gyrus	brain
29	chr11:86752400-86762400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr11:86753000-86758000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr11:86753200-86758000	Weak transcription	HUES64 Cell Line	embryonic stem cell
32	chr11:86753400-86760200	Weak transcription	Brain Anterior Caudate	brain
33	chr11:86753800-86758400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr11:86754200-86758400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr11:86754800-86758200	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
36	chr11:86754800-86758400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr11:86754800-86759600	Weak transcription	Fetal Muscle Trunk	muscle
38	chr11:86755000-86758400	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr11:86755200-86758800	Weak transcription	Brain Substantia Nigra	brain
40	chr11:86755200-86779000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr11:86755400-86780200	Weak transcription	Adipose Nuclei	Adipose
42	chr11:86755400-86780400	Weak transcription	Primary T cells fromperipheralblood	blood
43	chr11:86755600-86768600	Weak transcription	Liver	Liver
44	chr11:86755800-86770200	Weak transcription	Fetal Stomach	stomach
45	chr11:86756000-86758600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr11:86756400-86782800	Weak transcription	Fetal Intestine Small	intestine
47	chr11:86756800-86758200	ZNF genes & repeats	K562	blood
48	chr11:86756800-86768400	Weak transcription	Brain Hippocampus Middle	brain
49	chr11:86756800-86772400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr11:86757200-86758200	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain

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