Variant report

Variant	rs2963709
Chromosome Location	chr5:98284488-98284489
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:98261995..98270397-chr5:98280624..98292060,15	K562	blood:
2	chr5:98263361..98265726-chr5:98284004..98286158,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000153922	Chromatin interaction
ENSG00000248489	Chromatin interaction

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10039507	0.90[CEU][hapmap];0.95[EUR][1000 genomes]
rs10040675	0.91[EUR][1000 genomes]
rs10041263	0.90[CEU][hapmap];0.95[EUR][1000 genomes]
rs10041335	0.95[EUR][1000 genomes]
rs10054523	0.91[EUR][1000 genomes]
rs10055595	0.95[EUR][1000 genomes]
rs10056842	0.95[EUR][1000 genomes]
rs10056918	0.95[EUR][1000 genomes]
rs10061406	1.00[CEU][hapmap];0.86[YRI][hapmap];0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10062455	0.91[EUR][1000 genomes]
rs10064594	0.93[EUR][1000 genomes]
rs10065808	0.95[EUR][1000 genomes]
rs10067635	0.95[EUR][1000 genomes]
rs10067866	0.95[EUR][1000 genomes]
rs10068003	0.95[EUR][1000 genomes]
rs10068917	0.90[CEU][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10077697	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs10085106	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs10085145	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs10479350	0.86[EUR][1000 genomes]
rs10479351	0.91[EUR][1000 genomes]
rs10479352	0.91[EUR][1000 genomes]
rs10479353	0.86[EUR][1000 genomes]
rs10479354	0.84[EUR][1000 genomes]
rs10515284	1.00[CEU][hapmap]
rs11948998	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs11952820	0.81[EUR][1000 genomes]
rs11953096	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs11956636	1.00[CEU][hapmap]
rs11958835	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs12332280	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12332340	0.95[EUR][1000 genomes]
rs12332364	0.93[EUR][1000 genomes]
rs12332383	0.95[EUR][1000 genomes]
rs161742	1.00[CEU][hapmap];0.86[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17166414	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs17166423	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs17166428	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs17166439	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs17166455	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs17166484	0.95[EUR][1000 genomes]
rs17166575	0.95[EUR][1000 genomes]
rs17166578	0.89[CEU][hapmap];0.91[EUR][1000 genomes]
rs17663317	0.90[CEU][hapmap]
rs2164986	0.89[EUR][1000 genomes]
rs28555343	0.91[EUR][1000 genomes]
rs28656032	0.91[EUR][1000 genomes]
rs3179904	1.00[CEU][hapmap]
rs327810	0.85[EUR][1000 genomes]
rs36011435	0.89[EUR][1000 genomes]
rs44070	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55780476	0.95[EUR][1000 genomes]
rs55821667	0.95[EUR][1000 genomes]
rs55854720	0.93[EUR][1000 genomes]
rs56086412	0.95[EUR][1000 genomes]
rs56096102	0.93[EUR][1000 genomes]
rs56115002	0.95[EUR][1000 genomes]
rs56153113	0.95[EUR][1000 genomes]
rs56159022	0.93[EUR][1000 genomes]
rs56160758	0.95[EUR][1000 genomes]
rs56246849	0.91[EUR][1000 genomes]
rs56331326	0.84[EUR][1000 genomes]
rs56331947	0.95[EUR][1000 genomes]
rs56400831	0.89[EUR][1000 genomes]
rs58479016	0.95[EUR][1000 genomes]
rs58771325	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6596659	0.91[EUR][1000 genomes]
rs6866527	1.00[CEU][hapmap]
rs6866629	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs6867271	0.91[EUR][1000 genomes]
rs6880359	0.83[EUR][1000 genomes]
rs6883467	0.89[CEU][hapmap];0.95[EUR][1000 genomes]
rs6890358	0.95[EUR][1000 genomes]
rs6893282	1.00[CEU][hapmap]
rs6895358	0.90[CEU][hapmap];0.95[EUR][1000 genomes]
rs727637	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs73776017	0.83[EUR][1000 genomes]
rs73776027	0.83[EUR][1000 genomes]
rs73776028	0.83[EUR][1000 genomes]
rs7708436	0.95[EUR][1000 genomes]
rs7719375	0.91[EUR][1000 genomes]
rs7726329	0.83[EUR][1000 genomes]
rs7737402	0.89[CEU][hapmap];0.93[EUR][1000 genomes]
rs9327950	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9327954	0.95[EUR][1000 genomes]
rs9327955	0.95[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	nsv882415	chr5:98134186-98312447	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv882416	chr5:98146106-98312447	Bivalent/Poised TSS Strong transcription Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	nsv537819	chr5:98253348-98299646	Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:98266600-98291400	Weak transcription	Brain Germinal Matrix	brain
2	chr5:98274800-98297200	Weak transcription	Thymus	Thymus
3	chr5:98278600-98299400	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr5:98279400-98298400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr5:98282600-98290400	Weak transcription	Brain Hippocampus Middle	brain
6	chr5:98283800-98285000	Weak transcription	K562	blood
7	chr5:98283800-98293800	Weak transcription	Sigmoid Colon	Sigmoid Colon

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