Variant report

Variant	rs4655644
Chromosome Location	chr1:67091805-67091806
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA3	chr1:67091627-67092624	SK-N-SH	brain:	n/a	n/a
2	EP300	chr1:67091758-67092546	SK-N-SH	brain:	n/a	n/a
3	TCF12	chr1:67091671-67092575	SK-N-SH	brain:	n/a	n/a
4	NFIC	chr1:67091748-67092553	SK-N-SH	brain:	n/a	n/a
5	EP300	chr1:67091609-67092628	SK-N-SH	brain:	n/a	n/a
6	TCF12	chr1:67091805-67092548	SK-N-SH	brain:	n/a	n/a
7	GATA3	chr1:67091735-67092531	SK-N-SH	brain:	n/a	n/a

Variant related genes	Relation type
MIR3117	TF binding region

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:90)

rs_ID	r²[population]
rs10443224	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10493410	0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11208909	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11208915	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11208920	0.95[ASN][1000 genomes]
rs11208923	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11208926	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11208931	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11208938	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1159851	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1159852	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11799970	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11806387	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12027701	0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12032485	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12032691	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12037314	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12040170	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12041078	0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12044655	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12045543	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12048321	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12049347	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12116888	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12120279	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12121959	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12125455	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12126819	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12127654	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12127884	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12128429	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12128496	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12129319	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12131306	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12131909	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12135689	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12139975	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12725322	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12726588	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12729740	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12731043	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12731104	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12731112	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12741427	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12751879	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1373910	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1536114	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1570814	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17129098	0.88[YRI][hapmap]
rs17129280	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1900105	0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1975523	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1998717	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1998718	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2066006	0.87[YRI][hapmap]
rs2121041	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2218498	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2312154	0.95[ASN][1000 genomes]
rs34007277	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35156185	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35902414	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35939197	0.97[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4233317	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4428858	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4462119	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4488004	1.00[ASN][1000 genomes]
rs4655496	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4655497	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4655499	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4655500	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4655501	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4655502	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4655503	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4655619	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4655621	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4655622	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4655623	0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4655624	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4655625	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4655626	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4655629	0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4655637	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4655641	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4655645	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4655649	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6679568	0.95[ASN][1000 genomes]
rs6696812	0.81[ASN][1000 genomes]
rs7528182	1.00[ASN][1000 genomes]
rs7546825	0.81[ASN][1000 genomes]
rs9787184	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1221	chr1:67047908-67092696	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv869413	chr1:67082512-67414286	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:67058000-67092200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:67071600-67094800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr1:67084200-67099800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr1:67088400-67114200	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr1:67089400-67092000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr1:67089600-67092200	Weak transcription	Aorta	Aorta
7	chr1:67089800-67092600	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr1:67090400-67155000	Weak transcription	Fetal Heart	heart
9	chr1:67090800-67092000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr1:67090800-67094600	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr1:67090800-67099600	Weak transcription	Brain Cingulate Gyrus	brain
12	chr1:67090800-67108400	Weak transcription	Brain Anterior Caudate	brain
13	chr1:67091000-67092000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr1:67091000-67099000	Weak transcription	Brain Hippocampus Middle	brain
15	chr1:67091200-67092000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr1:67091200-67092200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr1:67091200-67100800	Weak transcription	Brain Angular Gyrus	brain
18	chr1:67091200-67100800	Weak transcription	NHLF	lung
19	chr1:67091200-67107400	Weak transcription	NHDF-Ad	bronchial
20	chr1:67091200-67108600	Weak transcription	Osteobl	bone
21	chr1:67091200-67108800	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr1:67091200-67128000	Weak transcription	NH-A	brain
23	chr1:67091400-67093200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr1:67091400-67098200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr1:67091400-67105200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
26	chr1:67091400-67107400	Weak transcription	Fetal Brain Female	brain
27	chr1:67091600-67094000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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