Variant report

Variant	rs17039529
Chromosome Location	chr2:50177419-50177420
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs12621581	0.95[CEU][hapmap];0.91[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12998574	0.82[JPT][hapmap]
rs1363046	1.00[CEU][hapmap];0.87[CHB][hapmap];0.96[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1421586	0.96[CEU][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1421594	0.95[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17039564	0.92[CEU][hapmap];0.91[JPT][hapmap];0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17039573	0.96[CEU][hapmap];0.87[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17039575	0.95[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17039577	1.00[CEU][hapmap];0.83[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17039582	1.00[CEU][hapmap];0.83[JPT][hapmap];0.81[YRI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17439140	0.95[CEU][hapmap];0.80[EUR][1000 genomes]
rs17491776	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs2193868	0.96[CEU][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2351145	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56325957	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59973985	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6713560	0.96[CEU][hapmap];0.83[CHB][hapmap];0.96[JPT][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6713940	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.80[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs725323	0.96[CEU][hapmap];0.91[JPT][hapmap];0.81[YRI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7573698	0.96[CEU][hapmap];0.83[CHB][hapmap];0.96[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7574241	0.95[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9679140	0.95[CEU][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs983094	0.96[CEU][hapmap];0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3388948	chr2:50092667-50602681	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
2	esv3399511	chr2:50092687-50602651	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv934303	chr2:50145598-50412189	Bivalent Enhancer Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:50141600-50187400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr2:50174800-50180000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr2:50176000-50185600	Weak transcription	Fetal Brain Female	brain
4	chr2:50176200-50186600	Weak transcription	Brain Angular Gyrus	brain
5	chr2:50176800-50178000	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr2:50176800-50178400	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr2:50177000-50178400	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr2:50177200-50178000	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr2:50177200-50178400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr2:50177400-50178000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr2:50177400-50178200	Enhancers	Brain Substantia Nigra	brain

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