Variant report

Variant	rs16843771
Chromosome Location	chr1:172032642-172032643
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10218614	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12562173	0.88[JPT][hapmap]
rs12562275	0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs12562403	0.88[JPT][hapmap];1.00[YRI][hapmap]
rs12568081	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12568723	0.82[ASN][1000 genomes]
rs12568908	0.88[JPT][hapmap]
rs12569236	0.88[JPT][hapmap]
rs12569310	0.87[JPT][hapmap];1.00[YRI][hapmap]
rs16843769	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16843772	1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16843775	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16843777	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16843795	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16843801	0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs16843816	0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs16843819	0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs16843820	0.87[JPT][hapmap];1.00[YRI][hapmap]
rs16843827	0.88[JPT][hapmap]
rs16843831	0.88[JPT][hapmap]
rs16843837	0.87[JPT][hapmap]
rs16843841	0.88[JPT][hapmap];1.00[YRI][hapmap]
rs16843842	0.88[JPT][hapmap]
rs3924561	0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs4916417	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4916419	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4916420	0.82[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	nsv532342	chr1:171922237-172133785	Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	62 gene(s)	inside rSNPs	diseases
2	nsv3532	chr1:171997451-172042351	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172010600-172051400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:172010800-172037600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr1:172011400-172037800	Weak transcription	Ovary	ovary
4	chr1:172015000-172033200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr1:172015000-172042600	Weak transcription	Fetal Brain Female	brain
6	chr1:172016600-172037800	Weak transcription	Brain Substantia Nigra	brain
7	chr1:172020200-172038800	Weak transcription	Brain Angular Gyrus	brain
8	chr1:172020200-172040600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr1:172024600-172040400	Weak transcription	Brain Anterior Caudate	brain
10	chr1:172024800-172040600	Weak transcription	Brain Germinal Matrix	brain
11	chr1:172025200-172037600	Weak transcription	Brain Cingulate Gyrus	brain
12	chr1:172025200-172037800	Weak transcription	Brain Hippocampus Middle	brain
13	chr1:172025200-172040600	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr1:172025400-172037800	Weak transcription	Brain Inferior Temporal Lobe	brain

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