Variant report

Variant	rs1368680
Chromosome Location	chr9:8895687-8895688
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	chr9:7844225..7844973-chr9:8895548..8896327,4	MCF-7	breast:
2	chr9:8485590..8486306-chr9:8895648..8896453,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000153707	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10815993	0.96[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10977344	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10977348	0.96[CEU][hapmap];0.82[CHB][hapmap];0.89[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10977352	0.96[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap]
rs13287276	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1594767	0.89[CEU][hapmap];1.00[JPT][hapmap]
rs35296100	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4237169	0.90[CHB][hapmap];0.92[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6477360	0.82[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9408748	0.96[CEU][hapmap];0.82[CHB][hapmap];0.89[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.95[TSI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022796	chr9:8360729-9110046	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1025800	chr9:8712487-9030627	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv539980	chr9:8712487-9030627	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv1015898	chr9:8753534-9011443	Active TSS Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv892242	chr9:8879472-8941668	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv892243	chr9:8885476-8898464	Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv892244	chr9:8889419-8898464	Weak transcription Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8891600-8896400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr9:8892400-8899400	Weak transcription	Brain Angular Gyrus	brain
3	chr9:8894600-8896200	Enhancers	Fetal Lung	lung
4	chr9:8894800-8895800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr9:8894800-8895800	Enhancers	Fetal Stomach	stomach
6	chr9:8894800-8896000	Enhancers	Brain Substantia Nigra	brain
7	chr9:8895000-8895800	Enhancers	Brain Cingulate Gyrus	brain
8	chr9:8895000-8897600	Enhancers	Fetal Heart	heart
9	chr9:8895200-8895800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr9:8895200-8895800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr9:8895400-8896200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr9:8895600-8895800	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr9:8895600-8895800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr9:8895600-8895800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr9:8895600-8895800	Enhancers	Skeletal Muscle Male	skeletal muscle
16	chr9:8895600-8895800	Enhancers	Skeletal Muscle Female	skeletal muscle
17	chr9:8895600-8896000	Enhancers	Adipose Nuclei	Adipose
18	chr9:8895600-8896000	Active TSS	Brain Hippocampus Middle	brain
19	chr9:8895600-8896000	Active TSS	Brain Inferior Temporal Lobe	brain
20	chr9:8895600-8896000	Active TSS	Psoas Muscle	Psoas
21	chr9:8895600-8896000	Active TSS	Stomach Smooth Muscle	stomach
22	chr9:8895600-8896200	Enhancers	Fetal Muscle Leg	muscle
23	chr9:8895600-8896200	Enhancers	Ovary	ovary
24	chr9:8895600-8896400	Active TSS	Brain Anterior Caudate	brain

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