Variant report

Variant	rs58758962
Chromosome Location	chr3:143375353-143375354
allele	G/T
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: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10513214	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10935499	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11916000	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16853964	0.87[ASN][1000 genomes]
rs57671316	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58563012	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60700545	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73152850	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73152852	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[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:25 , 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	chr3:143370200-143376000	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr3:143370400-143390400	Weak transcription	Fetal Lung	lung
10	chr3:143370600-143375600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr3:143370800-143420800	Weak transcription	Primary T cells from cord blood	blood
12	chr3:143371200-143383000	Weak transcription	Primary T cells fromperipheralblood	blood
13	chr3:143374000-143375600	Enhancers	H9 Cell Line	embryonic stem cell
14	chr3:143374200-143382800	Weak transcription	Esophagus	oesophagus
15	chr3:143374400-143377200	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr3:143374600-143376000	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr3:143374600-143377800	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr3:143374600-143378600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr3:143374800-143376200	Enhancers	HUES48 Cell Line	embryonic stem cell
20	chr3:143374800-143376200	Enhancers	iPS-15b Cell Line	embryonic stem cell
21	chr3:143374800-143376200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr3:143375000-143376000	Enhancers	iPS-20b Cell Line	embryonic stem cell
23	chr3:143375000-143376400	Enhancers	HUES64 Cell Line	embryonic stem cell
24	chr3:143375000-143377600	Weak transcription	HMEC	breast
25	chr3:143375200-143376000	Enhancers	iPS-18 Cell Line	embryonic stem cell

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