Variant report

Variant	rs1898656
Chromosome Location	chr3:105107629-105107630
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs13060146	0.85[ASN][1000 genomes]
rs13068958	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1438548	0.91[CHB][hapmap];0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs35401795	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs3772551	0.90[CHB][hapmap]
rs3772554	0.90[CHB][hapmap]
rs485922	0.90[CHB][hapmap]
rs519016	0.90[CHB][hapmap]
rs629187	0.90[CHB][hapmap]
rs66892237	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7652866	0.91[CHB][hapmap]

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	nsv525071	chr3:105004853-105409321	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv829650	chr3:105070893-105255036	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105094400-105109000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr3:105104000-105108000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr3:105104200-105108000	Enhancers	HepG2	liver
4	chr3:105105000-105116800	Weak transcription	Aorta	Aorta
5	chr3:105106400-105108600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr3:105106800-105108400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr3:105106800-105108600	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr3:105106800-105108600	Weak transcription	Brain Angular Gyrus	brain
9	chr3:105107000-105108600	Weak transcription	Brain Substantia Nigra	brain
10	chr3:105107000-105110400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr3:105107000-105112800	Weak transcription	NH-A	brain
12	chr3:105107000-105116800	Weak transcription	Osteobl	bone
13	chr3:105107000-105119400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr3:105107400-105108400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr3:105107600-105108000	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr3:105107600-105108000	Enhancers	A549	lung

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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