Variant report

Variant	rs6478136
Chromosome Location	chr9:117912691-117912692
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:117907106..117909131-chr9:117912075..117914540,2	MCF-7	breast:

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10119915	1.00[JPT][hapmap]
rs10120799	1.00[JPT][hapmap]
rs10122188	1.00[JPT][hapmap]
rs10125919	1.00[JPT][hapmap]
rs10465131	0.98[ASN][1000 genomes]
rs10817719	1.00[JPT][hapmap]
rs10817720	1.00[JPT][hapmap]
rs10817726	1.00[JPT][hapmap]
rs10982548	0.98[ASN][1000 genomes]
rs10982549	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10982551	0.98[ASN][1000 genomes]
rs10982560	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10982561	0.81[ASN][1000 genomes]
rs10982562	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10982563	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10982564	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10982565	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10982566	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10982568	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10982569	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10982570	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10982571	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10982573	1.00[ASN][1000 genomes]
rs10982574	1.00[ASN][1000 genomes]
rs10982575	1.00[ASN][1000 genomes]
rs10982580	1.00[ASN][1000 genomes]
rs10982581	1.00[ASN][1000 genomes]
rs10982582	1.00[ASN][1000 genomes]
rs10982583	0.98[ASN][1000 genomes]
rs10982584	1.00[ASN][1000 genomes]
rs10982585	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10982586	1.00[ASN][1000 genomes]
rs10982588	1.00[ASN][1000 genomes]
rs10982589	0.91[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10982590	0.91[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10982591	0.81[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10982597	1.00[JPT][hapmap]
rs10982610	1.00[JPT][hapmap]
rs12235377	1.00[JPT][hapmap]
rs12237691	1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs12338815	1.00[ASN][1000 genomes]
rs12338911	1.00[ASN][1000 genomes]
rs12347993	1.00[ASN][1000 genomes]
rs12348952	1.00[ASN][1000 genomes]
rs16932289	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16932349	1.00[JPT][hapmap]
rs56791225	0.98[ASN][1000 genomes]
rs59205962	0.95[ASN][1000 genomes]
rs60003319	0.95[ASN][1000 genomes]
rs60760004	0.98[ASN][1000 genomes]
rs6478135	1.00[CEU][hapmap]
rs6478138	1.00[ASN][1000 genomes]
rs6478139	1.00[ASN][1000 genomes]
rs6478140	1.00[ASN][1000 genomes]
rs6478141	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6478142	1.00[ASN][1000 genomes]
rs6478144	1.00[ASN][1000 genomes]
rs7027235	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7027851	0.98[ASN][1000 genomes]
rs7031730	1.00[ASN][1000 genomes]
rs7847093	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7851019	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7851086	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7851110	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7851481	0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7859387	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7862558	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7864609	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9886855	1.00[JPT][hapmap]

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	nsv615250	chr9:117768021-118012841	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv916912	chr9:117770039-118014140	Flanking Active TSS Enhancers Strong transcription Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv831697	chr9:117860416-118023927	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv6681	chr9:117893926-117938609	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:117909800-117913200	Weak transcription	Aorta	Aorta
2	chr9:117910000-117913400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr9:117910000-117918800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr9:117910000-117918800	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr9:117910400-117913600	Weak transcription	Rectal Smooth Muscle	rectum
6	chr9:117910400-117918800	Weak transcription	NHLF	lung
7	chr9:117911800-117917400	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr9:117912000-117917200	Weak transcription	Colon Smooth Muscle	Colon
9	chr9:117912200-117917200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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