Variant report

Variant	rs170278
Chromosome Location	chr1:84813535-84813536
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs1067072	1.00[ASN][1000 genomes]
rs12034653	0.83[AMR][1000 genomes]
rs1246546	0.85[JPT][hapmap];0.90[ASN][1000 genomes]
rs1246549	0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs1246550	0.83[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs160612	0.91[ASN][1000 genomes]
rs1690702	0.86[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1699157	0.92[ASN][1000 genomes]
rs172735	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs178367	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs178368	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs186405	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs315520	1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs315521	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs315522	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs315523	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs315524	0.99[ASN][1000 genomes]
rs315525	1.00[JPT][hapmap];0.82[YRI][hapmap];1.00[ASN][1000 genomes]
rs315526	1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs315527	0.92[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs315528	1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs315530	1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs315531	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs315532	0.92[ASN][1000 genomes]
rs315533	0.93[ASN][1000 genomes]
rs315535	0.92[ASN][1000 genomes]
rs315536	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs315538	0.99[ASN][1000 genomes]
rs315539	0.93[ASN][1000 genomes]
rs315540	0.91[ASN][1000 genomes]
rs315543	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs315544	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs315546	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs315547	0.92[ASN][1000 genomes]
rs315548	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs315549	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs315552	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs315553	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs315554	1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs315555	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs315556	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs316644	1.00[YRI][hapmap]
rs316660	1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs316661	1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs316662	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs316663	1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs316664	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs316665	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs487220	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs511087	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs592464	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs786653	0.92[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	nsv830414	chr1:84636738-84824651	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv830426	chr1:84704924-84856229	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:84795800-84827000	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr1:84801400-84815000	Weak transcription	Brain Substantia Nigra	brain
3	chr1:84802800-84815600	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr1:84805800-84813800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr1:84810200-84813800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr1:84810200-84819800	Weak transcription	HSMM	muscle
7	chr1:84810600-84814800	Weak transcription	Gastric	stomach
8	chr1:84810600-84815400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr1:84812200-84814200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr1:84812400-84814000	Enhancers	Brain Inferior Temporal Lobe	brain
11	chr1:84812400-84814200	Enhancers	Skeletal Muscle Female	skeletal muscle
12	chr1:84812600-84813600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr1:84812600-84813800	Enhancers	Fetal Stomach	stomach
14	chr1:84812600-84814000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr1:84812600-84814000	Enhancers	Psoas Muscle	Psoas
16	chr1:84812800-84814000	Enhancers	NHLF	lung
17	chr1:84812800-84814200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr1:84813000-84813600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr1:84813000-84813600	Enhancers	Cortex derived primary cultured neurospheres	brain
20	chr1:84813000-84813600	Enhancers	Brain Anterior Caudate	brain
21	chr1:84813000-84814000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr1:84813000-84814400	Enhancers	NH-A	brain
23	chr1:84813200-84813600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr1:84813200-84813600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr1:84813200-84813600	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
26	chr1:84813200-84813800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr1:84813200-84814000	Flanking Active TSS	Osteobl	bone
28	chr1:84813200-84814200	Enhancers	NHDF-Ad	bronchial
29	chr1:84813200-84814400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr1:84813200-84814600	Enhancers	HMEC	breast
31	chr1:84813200-84815200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr1:84813200-84815200	Weak transcription	Brain Cingulate Gyrus	brain
33	chr1:84813400-84813600	Enhancers	Fetal Muscle Leg	muscle
34	chr1:84813400-84813600	Flanking Active TSS	Stomach Smooth Muscle	stomach
35	chr1:84813400-84813800	Enhancers	Fetal Intestine Small	intestine

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