Variant report

Variant	rs6440993
Chromosome Location	chr3:155180174-155180175
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	chr3:155178266..155180297-chr3:155313970..155315734,2	K562	blood:
2	chr3:155166382..155168478-chr3:155179446..155181063,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000239508	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10936004	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11709283	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11709568	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11714606	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12107115	1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12493778	0.83[CHD][hapmap]
rs12630784	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12631218	0.87[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.93[JPT][hapmap];0.90[ASN][1000 genomes]
rs12633188	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12633236	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12633676	0.84[ASN][1000 genomes]
rs12634171	0.90[ASN][1000 genomes]
rs12637360	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs12696031	0.95[CHD][hapmap]
rs13066178	0.86[CHD][hapmap]
rs13074373	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13080233	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13081656	0.86[CHD][hapmap]
rs13083852	0.86[CHD][hapmap]
rs13093286	0.86[ASN][1000 genomes]
rs13094738	1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[JPT][hapmap];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13100169	0.95[CHD][hapmap]
rs2351	0.87[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs2352	0.87[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs28575712	0.89[ASN][1000 genomes]
rs35259851	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35630673	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs36006137	0.84[ASN][1000 genomes]
rs4679745	0.90[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.92[GIH][hapmap];0.93[JPT][hapmap];0.86[TSI][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4679746	0.87[CEU][hapmap];0.95[CHB][hapmap];0.93[JPT][hapmap];0.90[ASN][1000 genomes]
rs4679747	0.87[CEU][hapmap];0.95[CHB][hapmap];0.93[JPT][hapmap];0.90[ASN][1000 genomes]
rs4680173	0.86[CHD][hapmap]
rs4680174	0.81[CHD][hapmap]
rs4680176	0.86[CHD][hapmap]
rs4680180	0.90[CEU][hapmap];0.95[CHB][hapmap];0.93[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4680181	0.90[ASN][1000 genomes]
rs4680182	0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4680183	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4680185	0.87[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56103965	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6440985	0.86[CHD][hapmap]
rs6440990	0.87[CEU][hapmap];0.95[CHB][hapmap];0.93[JPT][hapmap];0.90[ASN][1000 genomes]
rs6440994	0.86[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs6440995	0.86[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs6798100	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6802079	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];0.93[JPT][hapmap];0.86[TSI][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6804318	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs6807784	0.86[CHD][hapmap]
rs7615026	0.95[CHD][hapmap]
rs7616618	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7616703	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7618495	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7643640	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9289955	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9809653	0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9818939	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9829532	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9848852	0.87[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9850280	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9856512	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9869956	0.95[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];0.94[GIH][hapmap];0.93[JPT][hapmap];0.86[TSI][hapmap];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9870325	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1000753	chr3:154848433-155207022	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv536773	chr3:154848433-155207022	Enhancers Strong transcription Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv877679	chr3:155128968-155204939	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv437889	chr3:155180174-155185050	Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155173800-155182400	Weak transcription	Gastric	stomach
2	chr3:155175000-155183000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr3:155176000-155183400	Weak transcription	Fetal Intestine Small	intestine
4	chr3:155177600-155186800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr3:155178400-155198800	Weak transcription	Thymus	Thymus
6	chr3:155178800-155183600	Weak transcription	Fetal Thymus	thymus
7	chr3:155179000-155181600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:155179400-155181200	Strong transcription	Dnd41	blood
9	chr3:155179600-155181600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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