Variant report

Variant	rs9822605
Chromosome Location	chr3:143374088-143374089
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C3orf58-2	chr3:143372169-143376642	NONHSAT092529

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs1242058	0.82[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1242061	0.83[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1242064	0.82[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1242076	1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[ASN][1000 genomes]
rs12635131	0.81[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[YRI][hapmap];0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9878014	0.91[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	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv829745	chr3:143278512-143405626	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143328200-143376200	Weak transcription	Ovary	ovary
2	chr3:143363400-143377600	Weak transcription	NHDF-Ad	bronchial
3	chr3:143363600-143375400	Weak transcription	Fetal Thymus	thymus
4	chr3:143363600-143377800	Weak transcription	Adipose Nuclei	Adipose
5	chr3:143363600-143379000	Weak transcription	Fetal Muscle Leg	muscle
6	chr3:143367400-143390400	Weak transcription	Brain Substantia Nigra	brain
7	chr3:143367600-143375400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr3:143369400-143374600	Weak transcription	Lung	lung
9	chr3:143370200-143374800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr3:143370200-143376000	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr3:143370400-143390400	Weak transcription	Fetal Lung	lung
12	chr3:143370600-143375600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr3:143370800-143420800	Weak transcription	Primary T cells from cord blood	blood
14	chr3:143371200-143383000	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr3:143371800-143374800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr3:143372000-143375000	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr3:143372200-143374400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr3:143372400-143375000	Enhancers	HMEC	breast
19	chr3:143372600-143375000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr3:143373000-143374200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr3:143373200-143374200	Enhancers	HSMM	muscle
22	chr3:143373400-143374200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr3:143373600-143374200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr3:143373600-143374200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr3:143373600-143374400	Enhancers	Pancreatic Islets	Pancreatic Islet
26	chr3:143373800-143374200	Enhancers	HSMMtube	muscle
27	chr3:143373800-143374600	Strong transcription	Monocytes-CD14+_RO01746	blood
28	chr3:143374000-143374200	Enhancers	Esophagus	oesophagus
29	chr3:143374000-143375600	Enhancers	H9 Cell Line	embryonic stem cell

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