Variant report

Variant	rs55738349
Chromosome Location	chr3:109899669-109899670
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10934019	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10934020	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10934021	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12053963	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1350857	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16856451	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16856454	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59416282	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73851404	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73851405	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73851406	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73851407	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73851408	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73851411	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7649126	0.84[ASN][1000 genomes]
rs7652016	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877332	chr3:109575764-110186611	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv829667	chr3:109786662-109939671	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	n/a	n/a	inside rSNPs	diseases
3	nsv432472	chr3:109871824-109942107	Weak transcription Enhancers Flanking Active TSS Active TSS	n/a	n/a	inside rSNPs	diseases
4	nsv432473	chr3:109875668-109918190	Enhancers Flanking Active TSS Weak transcription Active TSS	n/a	n/a	inside rSNPs	diseases
5	esv2754324	chr3:109875668-109933826	Weak transcription Enhancers Flanking Active TSS Active TSS	n/a	n/a	inside rSNPs	diseases
6	nsv460816	chr3:109878008-110044601	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv591271	chr3:109878008-110044601	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:109897800-109900000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr3:109897800-109900000	Enhancers	Adipose Nuclei	Adipose
3	chr3:109898400-109900200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr3:109898800-109899800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:109899000-109900400	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr3:109899400-109899800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr3:109899400-109900000	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr3:109899400-109900000	Enhancers	Liver	Liver
9	chr3:109899400-109900000	Flanking Active TSS	Ovary	ovary
10	chr3:109899400-109900400	Enhancers	Brain Germinal Matrix	brain
11	chr3:109899400-109900600	Enhancers	Fetal Lung	lung
12	chr3:109899600-109899800	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr3:109899600-109899800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:109899600-109900000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr3:109899600-109900000	Enhancers	Muscle Satellite Cultured Cells	--
16	chr3:109899600-109900000	Enhancers	Brain Hippocampus Middle	brain
17	chr3:109899600-109900000	Flanking Active TSS	Brain Substantia Nigra	brain
18	chr3:109899600-109900000	Enhancers	Fetal Brain Female	brain
19	chr3:109899600-109900000	Enhancers	Fetal Stomach	stomach
20	chr3:109899600-109900000	Flanking Active TSS	Stomach Smooth Muscle	stomach
21	chr3:109899600-109900000	Enhancers	NHLF	lung
22	chr3:109899600-109900200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr3:109899600-109900200	Active TSS	Aorta	Aorta
24	chr3:109899600-109900200	Enhancers	Duodenum Smooth Muscle	Duodenum

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