Variant report

Variant	rs1269645
Chromosome Location	chr7:107891529-107891530
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:107890613..107892348-chr7:107896221..107898367,2	MCF-7	breast:
2	chr7:107889555..107891760-chr7:107925759..107927489,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1155	0.93[CEU][hapmap];0.91[CHB][hapmap];0.93[JPT][hapmap];0.84[AMR][1000 genomes]
rs1269622	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1269623	0.88[EUR][1000 genomes]
rs1269625	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1269628	0.96[CEU][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1269629	0.96[CEU][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1269634	0.96[CEU][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1269639	0.89[CEU][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1269640	0.96[CEU][hapmap];0.82[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1269641	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1269642	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs1269643	0.96[CEU][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1269649	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1269650	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1269651	1.00[CHB][hapmap];0.93[JPT][hapmap];0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1269652	0.83[AFR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1269653	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1269655	0.89[CHB][hapmap];0.83[JPT][hapmap];0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1269656	0.84[AMR][1000 genomes]
rs1269659	0.92[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.82[AMR][1000 genomes]
rs17155335	0.81[ASN][1000 genomes]
rs2284284	0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs36065373	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs405945	0.92[CEU][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs422011	0.92[CEU][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs55843101	0.81[ASN][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	esv3348839	chr7:107377311-108286538	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	91 gene(s)	inside rSNPs	diseases
2	nsv949344	chr7:107396502-107987085	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv831090	chr7:107786650-108011196	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:107887200-107891800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr7:107887400-107892000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr7:107887400-107892000	Weak transcription	Pancreas	Pancrea
4	chr7:107887400-107893800	Weak transcription	Fetal Muscle Leg	muscle
5	chr7:107887400-107894000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr7:107887400-107925000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr7:107887800-107894000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr7:107888000-107906800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr7:107888400-107892000	Weak transcription	HSMMtube	muscle
10	chr7:107888400-107892200	Weak transcription	HSMM	muscle
11	chr7:107888600-107892000	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr7:107888600-107892000	Weak transcription	K562	blood
13	chr7:107889400-107892000	Weak transcription	Brain Angular Gyrus	brain
14	chr7:107889400-107893800	Weak transcription	HMEC	breast
15	chr7:107889400-107894200	Weak transcription	Osteobl	bone
16	chr7:107889600-107892000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr7:107889800-107892000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr7:107889800-107892000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr7:107889800-107892000	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr7:107889800-107892200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr7:107890000-107892000	Weak transcription	Brain Hippocampus Middle	brain
22	chr7:107890000-107892200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr7:107890200-107892000	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr7:107890200-107892000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr7:107890200-107892000	Weak transcription	Brain Cingulate Gyrus	brain
26	chr7:107890400-107892000	Enhancers	A549	lung
27	chr7:107890600-107892000	Weak transcription	Brain Anterior Caudate	brain
28	chr7:107891000-107892000	Weak transcription	Brain Substantia Nigra	brain
29	chr7:107891200-107893000	Weak transcription	Pancreatic Islets	Pancreatic Islet

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