Variant report

Variant	rs17024154
Chromosome Location	chr2:39925400-39925401
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10198734	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13388310	1.00[CHB][hapmap]
rs13395966	0.96[EUR][1000 genomes]
rs17024276	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17024299	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17024307	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[EUR][1000 genomes]
rs17024325	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17537453	0.83[AMR][1000 genomes]
rs2058621	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2110672	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2110673	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2160207	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[EUR][1000 genomes]
rs2192712	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[EUR][1000 genomes]
rs2540234	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2716706	0.96[EUR][1000 genomes]
rs2716724	0.91[EUR][1000 genomes]
rs2716726	0.91[EUR][1000 genomes]
rs2716734	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57704430	0.96[EUR][1000 genomes]
rs60003713	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6708232	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6716262	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6745129	0.96[EUR][1000 genomes]
rs73924917	0.96[EUR][1000 genomes]
rs73924918	0.96[EUR][1000 genomes]
rs73924919	0.96[EUR][1000 genomes]
rs73924920	0.96[EUR][1000 genomes]
rs73924934	0.96[EUR][1000 genomes]
rs7576551	0.84[EUR][1000 genomes]
rs7604790	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[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	nsv873889	chr2:39830183-39950482	Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv833870	chr2:39837022-40026024	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv833881	chr2:39914558-40067256	Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:39914200-39926800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr2:39923200-39925600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
3	chr2:39923400-39925400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr2:39923400-39925600	Enhancers	Fetal Brain Female	brain
5	chr2:39923600-39926200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr2:39923600-39935200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr2:39924200-39926000	Enhancers	Fetal Heart	heart
8	chr2:39924800-39926000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr2:39925000-39957600	Weak transcription	Fetal Stomach	stomach
10	chr2:39925200-39926600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr2:39925200-39950000	Weak transcription	Left Ventricle	heart
12	chr2:39925400-39929000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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