Variant report

Variant	rs1421169
Chromosome Location	chr3:177646888-177646889
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11919677	0.91[CHB][hapmap];0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs11920776	0.91[CHB][hapmap];0.87[JPT][hapmap];0.86[ASN][1000 genomes]
rs12489750	0.97[ASN][1000 genomes]
rs12492069	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12492409	0.86[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[ASN][1000 genomes]
rs12496207	0.81[ASN][1000 genomes]
rs12497387	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13062823	0.82[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[ASN][1000 genomes]
rs13074448	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13075342	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1421163	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1421164	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1421170	0.87[ASN][1000 genomes]
rs1582399	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16828811	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16828819	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1861886	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1895075	0.81[ASN][1000 genomes]
rs34300091	0.87[ASN][1000 genomes]
rs34534264	0.97[ASN][1000 genomes]
rs34603970	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34969108	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35006769	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs35494413	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35569214	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35751119	0.94[ASN][1000 genomes]
rs3978728	0.82[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs6786110	0.91[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs7616735	0.89[ASN][1000 genomes]
rs7619802	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.95[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931055	chr3:177229521-177889872	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:177638000-177649800	Weak transcription	Primary hematopoietic stem cells	blood
2	chr3:177645400-177647000	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr3:177645600-177647200	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr3:177645600-177647600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr3:177645600-177652000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr3:177645800-177647000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr3:177645800-177647600	Enhancers	Muscle Satellite Cultured Cells	--
8	chr3:177646000-177647400	Enhancers	NHEK	skin
9	chr3:177646000-177647600	Enhancers	NHDF-Ad	bronchial
10	chr3:177646200-177647400	Enhancers	Osteobl	bone
11	chr3:177646200-177647600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr3:177646200-177647800	Enhancers	HMEC	breast
13	chr3:177646400-177647200	Enhancers	HSMMtube	muscle
14	chr3:177646400-177647400	Enhancers	HSMM	muscle
15	chr3:177646400-177651000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr3:177646600-177647000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr3:177646600-177648000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr3:177646600-177648200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr3:177646600-177648400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr3:177646600-177648600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr3:177646600-177648800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr3:177646600-177649800	Weak transcription	A549	lung
23	chr3:177646600-177649800	Weak transcription	NH-A	brain
24	chr3:177646600-177650400	Enhancers	Breast Myoepithelial Primary Cells	Breast
25	chr3:177646800-177647200	Enhancers	Monocytes-CD14+_RO01746	blood
26	chr3:177646800-177648200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr3:177646800-177652000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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