Variant report

Variant	rs4679666
Chromosome Location	chr3:160629025-160629026
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160472665..160476434-chr3:160627651..160631285,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000260572	Chromatin interaction
ENSG00000163590	Chromatin interaction

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs1037888	0.88[CEU][hapmap]
rs10513559	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs10513562	1.00[CEU][hapmap]
rs11708813	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs11716265	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs11922752	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11924510	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12639128	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13064176	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs13071909	0.91[EUR][1000 genomes]
rs13073571	0.82[EUR][1000 genomes]
rs13086250	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13089559	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs13092102	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs13097130	0.82[EUR][1000 genomes]
rs13098884	1.00[CEU][hapmap]
rs1374793	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1447618	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1447619	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1447620	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1610158	0.88[CEU][hapmap]
rs17236725	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17236746	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs17826438	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs1839015	0.86[EUR][1000 genomes]
rs1839021	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2121718	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs2306061	0.84[CEU][hapmap]
rs2593812	1.00[CEU][hapmap]
rs34168351	0.81[EUR][1000 genomes]
rs34297047	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4557202	0.84[CEU][hapmap]
rs4679662	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4679922	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs4679924	0.96[CEU][hapmap];0.86[EUR][1000 genomes]
rs4679926	1.00[CEU][hapmap]
rs5004752	1.00[CEU][hapmap]
rs55888276	0.85[EUR][1000 genomes]
rs55956394	0.89[EUR][1000 genomes]
rs56665329	0.89[EUR][1000 genomes]
rs61105146	0.83[EUR][1000 genomes]
rs62270272	0.89[EUR][1000 genomes]
rs62270274	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62270275	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62280303	0.86[EUR][1000 genomes]
rs6441339	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6441354	0.83[CEU][hapmap]
rs6764019	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs6796201	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6799160	0.92[CEU][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6804650	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs6806054	1.00[CEU][hapmap]
rs6809177	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs723757	0.87[EUR][1000 genomes]
rs7622047	0.88[CEU][hapmap]
rs7632423	1.00[CEU][hapmap]
rs778642	1.00[CEU][hapmap]
rs778643	1.00[CEU][hapmap]
rs778649	1.00[CEU][hapmap]
rs778653	1.00[CEU][hapmap]
rs778654	1.00[CEU][hapmap]
rs778657	1.00[CEU][hapmap]
rs796609	1.00[CEU][hapmap]
rs898680	0.88[CEU][hapmap]
rs898681	0.88[CEU][hapmap]
rs9290065	0.96[CEU][hapmap]
rs9790132	0.96[CEU][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs980975	0.88[CEU][hapmap]
rs980976	0.88[CEU][hapmap]
rs9811594	1.00[CEU][hapmap]
rs9847866	0.96[CEU][hapmap]
rs9860360	1.00[CEU][hapmap]
rs9875200	1.00[CEU][hapmap]

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	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv519474	chr3:160620205-160630267	Weak transcription Enhancers ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160621200-160629200	Weak transcription	Psoas Muscle	Psoas
2	chr3:160625800-160629200	Weak transcription	Left Ventricle	heart
3	chr3:160628800-160629200	Enhancers	Skeletal Muscle Male	skeletal muscle
4	chr3:160628800-160630000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr3:160629000-160629400	Weak transcription	Fetal Brain Male	brain
6	chr3:160629000-160629600	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr3:160629000-160629600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr3:160629000-160629600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain

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