Variant report

Variant	rs13440141
Chromosome Location	chr9:104074639-104074640
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:103462912..103463800-chr9:104073433..104074690,5	K562	blood:
2	chr9:104022273..104023207-chr9:104074087..104074825,2	MCF-7	breast:
3	chr9:103364235..103365012-chr9:104074061..104074764,2	MCF-7	breast:
4	chr9:103362677..103364065-chr9:104073640..104074719,9	MCF-7	breast:
5	chr9:103881294..103882107-chr9:104073696..104074727,3	MCF-7	breast:
6	chr9:104069628..104072510-chr9:104073819..104075636,2	MCF-7	breast:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10118704	0.80[AMR][1000 genomes]
rs10120191	0.83[EUR][1000 genomes]
rs10124153	0.80[AMR][1000 genomes]
rs10217289	1.00[CEU][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10217411	0.89[CEU][hapmap];0.90[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10217724	1.00[CEU][hapmap];0.90[YRI][hapmap];0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12337610	1.00[CEU][hapmap];0.91[YRI][hapmap];0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12338304	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12352498	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1341768	0.90[CEU][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13440036	1.00[CEU][hapmap];0.90[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13440426	0.89[CEU][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1544193	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1544194	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28398252	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28489693	1.00[ASN][1000 genomes]
rs55805275	1.00[ASN][1000 genomes]
rs56198539	1.00[ASN][1000 genomes]
rs6479047	0.90[CEU][hapmap];0.94[EUR][1000 genomes]
rs6479048	1.00[CEU][hapmap];0.90[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7028337	0.89[CEU][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7855910	1.00[ASN][1000 genomes]

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	nsv1037157	chr9:104045761-104149233	Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1049740	chr9:104049624-104075825	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:104069400-104075000	Weak transcription	Fetal Brain Male	brain
2	chr9:104069600-104074800	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr9:104069800-104075000	Weak transcription	Brain Germinal Matrix	brain
4	chr9:104069800-104075000	Weak transcription	Fetal Muscle Leg	muscle
5	chr9:104070800-104075000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr9:104072400-104075800	Enhancers	Brain Hippocampus Middle	brain
7	chr9:104073000-104088600	Weak transcription	Brain Cingulate Gyrus	brain
8	chr9:104073600-104075200	Enhancers	Brain Angular Gyrus	brain
9	chr9:104073800-104075200	Enhancers	HSMM	muscle
10	chr9:104073800-104082600	Weak transcription	Brain Anterior Caudate	brain
11	chr9:104074200-104075200	Enhancers	HepG2	liver
12	chr9:104074200-104075400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr9:104074200-104075400	Enhancers	Fetal Lung	lung
14	chr9:104074200-104075400	Enhancers	HSMMtube	muscle
15	chr9:104074200-104080800	Enhancers	Liver	Liver
16	chr9:104074400-104075000	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr9:104074400-104081200	Weak transcription	Brain Substantia Nigra	brain
18	chr9:104074600-104074800	Weak transcription	Adipose Nuclei	Adipose
19	chr9:104074600-104075200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr9:104074600-104077200	Weak transcription	A549	lung

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