Variant report

Variant	rs10461112
Chromosome Location	chr4:15457300-15457301
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1024758	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.95[TSI][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1024759	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1048037	0.83[CEU][hapmap];0.83[EUR][1000 genomes]
rs10488970	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12233742	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13104095	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13114788	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13120744	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13123050	0.94[ASN][1000 genomes]
rs13123785	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13124984	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13129124	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13132007	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13132446	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13132604	0.91[CEU][hapmap];0.84[CHB][hapmap];0.85[JPT][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13138481	0.91[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.95[TSI][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13138554	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs16891929	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16891934	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16891939	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16891945	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17469724	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1990524	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2160046	0.85[EUR][1000 genomes]
rs2192355	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28561808	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34028526	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34351987	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34352292	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34400909	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34496443	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs35301498	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs35465107	0.92[ASN][1000 genomes]
rs35539860	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35866305	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35971217	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3797006	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58479200	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs59684117	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61240629	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62289285	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs66696244	0.86[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs67391897	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs68012715	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs71601473	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs71601477	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs722235	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7442554	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7661287	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3448986	chr4:14928802-15805558	Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	esv2757923	chr4:15444617-15749520	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv2759227	chr4:15444617-15749520	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15438400-15458800	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr4:15438800-15471200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr4:15448400-15458800	Weak transcription	Primary T cells from cord blood	blood
4	chr4:15453000-15458800	Weak transcription	Brain Hippocampus Middle	brain
5	chr4:15453400-15458200	Weak transcription	Primary hematopoietic stem cells	blood
6	chr4:15453400-15458400	Weak transcription	Primary B cells from cord blood	blood
7	chr4:15453400-15458600	Weak transcription	Left Ventricle	heart
8	chr4:15453600-15457600	Enhancers	NHDF-Ad	bronchial
9	chr4:15453600-15458400	Weak transcription	Spleen	Spleen
10	chr4:15453600-15458600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr4:15453600-15459000	Weak transcription	Brain Anterior Caudate	brain
12	chr4:15453600-15459000	Weak transcription	Fetal Muscle Leg	muscle
13	chr4:15453800-15458600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr4:15454000-15458400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr4:15454000-15458800	Weak transcription	Fetal Lung	lung
16	chr4:15454200-15458600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr4:15454200-15458600	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr4:15454200-15458800	Weak transcription	Rectal Smooth Muscle	rectum
19	chr4:15454200-15458800	Weak transcription	Stomach Mucosa	stomach
20	chr4:15454200-15459000	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr4:15454400-15458800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr4:15454400-15458800	Weak transcription	Colon Smooth Muscle	Colon
23	chr4:15454600-15458600	Weak transcription	Fetal Stomach	stomach
24	chr4:15454800-15459000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr4:15454800-15459000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr4:15455800-15457600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr4:15456200-15457600	Enhancers	Placenta	Placenta
28	chr4:15456200-15459600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr4:15456200-15459800	Enhancers	NHLF	lung
30	chr4:15456400-15457400	Enhancers	Muscle Satellite Cultured Cells	--
31	chr4:15456400-15457600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr4:15456400-15457600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr4:15456400-15457600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr4:15456400-15457600	Enhancers	Aorta	Aorta
35	chr4:15456400-15457600	Enhancers	Osteobl	bone
36	chr4:15456400-15457800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr4:15456400-15458800	Enhancers	Monocytes-CD14+_RO01746	blood
38	chr4:15456400-15459800	Enhancers	Primary monocytes fromperipheralblood	blood
39	chr4:15456600-15457400	Enhancers	Skeletal Muscle Female	skeletal muscle
40	chr4:15456600-15457600	Enhancers	Liver	Liver
41	chr4:15456600-15457600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
42	chr4:15456600-15457800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr4:15456600-15457800	Enhancers	Adipose Nuclei	Adipose
44	chr4:15456600-15457800	Enhancers	Ovary	ovary
45	chr4:15456800-15457400	Enhancers	HSMMtube	muscle
46	chr4:15456800-15457600	Enhancers	Primary neutrophils fromperipheralblood	blood
47	chr4:15457000-15457400	Enhancers	Brain Substantia Nigra	brain
48	chr4:15457200-15457400	Enhancers	Brain Angular Gyrus	brain
49	chr4:15457200-15457600	Enhancers	Stomach Smooth Muscle	stomach
50	chr4:15457200-15458600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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