Variant report

Variant	rs6708025
Chromosome Location	chr2:178577642-178577643
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:178563706..178566606-chr2:178575234..178578088,2	K562	blood:
2	chr2:178567581..178570235-chr2:178573899..178577717,4	K562	blood:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10165826	1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs10168641	0.83[YRI][hapmap];0.87[AMR][1000 genomes]
rs10172247	0.93[YRI][hapmap];0.87[AMR][1000 genomes]
rs10172800	0.83[YRI][hapmap];0.87[AMR][1000 genomes]
rs10176298	0.86[YRI][hapmap];0.81[AFR][1000 genomes]
rs10177961	1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs10178433	0.80[YRI][hapmap]
rs10178985	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10192225	0.93[YRI][hapmap];0.90[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10194370	0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10202985	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs10210259	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13422021	0.93[YRI][hapmap];0.90[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs13427906	0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs13429220	0.82[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13431084	1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs1438035	0.93[AMR][1000 genomes]
rs1438045	0.96[YRI][hapmap]
rs1438046	0.90[YRI][hapmap];0.80[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs16865593	0.93[YRI][hapmap];0.83[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs16865604	0.82[YRI][hapmap];0.87[AMR][1000 genomes]
rs16865698	0.80[YRI][hapmap];0.87[AMR][1000 genomes]
rs16865700	0.87[AMR][1000 genomes]
rs16865709	0.93[YRI][hapmap];0.85[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs1866214	0.93[YRI][hapmap];0.84[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2164858	0.83[YRI][hapmap];0.87[AMR][1000 genomes]
rs57807004	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs60501109	0.87[AMR][1000 genomes]
rs6727390	0.90[YRI][hapmap];0.80[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6752409	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs6760512	0.90[YRI][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs714528	1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs73979531	0.87[AMR][1000 genomes]
rs7569984	0.83[YRI][hapmap];0.87[AMR][1000 genomes]
rs7583817	0.83[YRI][hapmap];0.87[AMR][1000 genomes]
rs7606084	0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999086	chr2:178262348-178773585	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv536055	chr2:178262348-178773585	Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv431812	chr2:178525371-178584470	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv870023	chr2:178545623-178581407	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1005854	chr2:178546907-178586608	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 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	chr2:178574200-178579200	Weak transcription	Brain Anterior Caudate	brain
2	chr2:178574200-178579400	Weak transcription	Brain Hippocampus Middle	brain
3	chr2:178574200-178579600	Weak transcription	Brain Germinal Matrix	brain
4	chr2:178574200-178580600	Weak transcription	Brain Angular Gyrus	brain
5	chr2:178574400-178579600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr2:178574400-178579600	Weak transcription	Brain Substantia Nigra	brain
7	chr2:178575000-178579200	Weak transcription	Left Ventricle	heart
8	chr2:178575600-178577800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr2:178577000-178578800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr2:178577400-178579600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr2:178577600-178579200	Weak transcription	Fetal Kidney	kidney

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