Variant report

Variant	rs62256396
Chromosome Location	chr3:67536888-67536889
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11127623	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11705861	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11709258	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs11920877	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11923553	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12374036	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12635531	0.84[EUR][1000 genomes]
rs4327406	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4349513	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4645146	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56393250	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57077433	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60806282	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62256386	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62256387	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62256391	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62256392	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62256395	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62256399	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6779086	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6789939	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6802566	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6805028	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6810165	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73088910	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7429940	0.80[EUR][1000 genomes]
rs7630024	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7651649	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9873407	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];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	nsv1007093	chr3:67113534-67602973	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv470638	chr3:67367341-67814738	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv460700	chr3:67393629-67712970	Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv590560	chr3:67393629-67712970	Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv834719	chr3:67396626-67589852	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:67473600-67542000	Weak transcription	Duodenum Mucosa	Duodenum
2	chr3:67488000-67544200	Weak transcription	A549	lung
3	chr3:67488400-67566400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr3:67492200-67545400	Weak transcription	Fetal Intestine Small	intestine
5	chr3:67500800-67567000	Weak transcription	Pancreas	Pancrea
6	chr3:67504000-67559800	Weak transcription	Esophagus	oesophagus
7	chr3:67506600-67544000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
8	chr3:67508200-67577600	Weak transcription	Spleen	Spleen
9	chr3:67508800-67542000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr3:67509000-67537200	Weak transcription	Rectal Smooth Muscle	rectum
11	chr3:67511600-67560000	Weak transcription	Lung	lung
12	chr3:67511800-67565000	Weak transcription	Stomach Smooth Muscle	stomach
13	chr3:67512200-67544000	Weak transcription	Adipose Nuclei	Adipose
14	chr3:67512200-67545200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr3:67512800-67537200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:67512800-67542400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr3:67512800-67544000	Weak transcription	Dnd41	blood
18	chr3:67512800-67544800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr3:67512800-67554800	Weak transcription	Fetal Muscle Leg	muscle
20	chr3:67513200-67544000	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr3:67513200-67544600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr3:67513200-67545200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr3:67513200-67564800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr3:67513400-67542600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr3:67513400-67567800	Weak transcription	NHLF	lung
26	chr3:67513600-67544200	Weak transcription	Liver	Liver
27	chr3:67513600-67559800	Weak transcription	NHDF-Ad	bronchial
28	chr3:67514600-67559800	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr3:67516200-67545000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr3:67517600-67542400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr3:67518800-67537000	Weak transcription	Colon Smooth Muscle	Colon
32	chr3:67519000-67539200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr3:67519200-67545600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr3:67519600-67541200	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr3:67519800-67557400	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr3:67520800-67559800	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr3:67521600-67580400	Weak transcription	Stomach Mucosa	stomach
38	chr3:67522400-67542600	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr3:67524200-67567000	Weak transcription	Placenta	Placenta
40	chr3:67525800-67537000	Weak transcription	Psoas Muscle	Psoas
41	chr3:67526000-67542600	Weak transcription	Primary T helper cells PMA-I stimulated	--
42	chr3:67526800-67583200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr3:67528200-67564400	Weak transcription	Fetal Lung	lung
44	chr3:67528200-67564800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr3:67529000-67559200	Weak transcription	GM12878-XiMat	blood
46	chr3:67530200-67560200	Weak transcription	NHEK	skin
47	chr3:67530800-67542200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr3:67530800-67548200	Weak transcription	Primary neutrophils fromperipheralblood	blood
49	chr3:67531400-67541400	Weak transcription	Fetal Stomach	stomach
50	chr3:67531400-67576200	Weak transcription	HMEC	breast

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