Variant report

Variant	rs11789657
Chromosome Location	chr9:14240161-14240162
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:14238955..14240869-chr9:14312847..14315705,2	MCF-7	breast:
2	chr9:14239275..14240780-chr9:14249848..14252251,2	MCF-7	breast:
3	chr9:14236857..14240326-chr9:14312034..14315469,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000147862	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10961441	0.87[CEU][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10961443	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10961444	0.87[CEU][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1322986	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1322987	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs17210326	1.00[CHB][hapmap]
rs62532760	0.83[AMR][1000 genomes]
rs7040053	0.83[CEU][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023303	chr9:14025605-14286269	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv540069	chr9:14025605-14286269	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv1029491	chr9:14033607-14942373	Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv915804	chr9:14182608-14903050	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
5	nsv916811	chr9:14210978-14542068	Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
6	nsv892598	chr9:14234315-14274950	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:14221200-14245600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:14222400-14240600	Weak transcription	Stomach Smooth Muscle	stomach
3	chr9:14224400-14246800	Weak transcription	Fetal Muscle Trunk	muscle
4	chr9:14233000-14240200	Weak transcription	Brain Germinal Matrix	brain
5	chr9:14234800-14240200	Enhancers	Fetal Heart	heart
6	chr9:14235200-14241800	Enhancers	Adipose Nuclei	Adipose
7	chr9:14236400-14241400	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr9:14236400-14245400	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr9:14236600-14240600	Weak transcription	Small Intestine	intestine
10	chr9:14237200-14240800	Enhancers	Fetal Lung	lung
11	chr9:14237600-14240600	Weak transcription	Brain Angular Gyrus	brain
12	chr9:14237800-14240200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr9:14238000-14241000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr9:14238200-14240600	Weak transcription	Fetal Stomach	stomach
15	chr9:14238400-14240200	Weak transcription	Brain Hippocampus Middle	brain
16	chr9:14238400-14240200	Weak transcription	Right Ventricle	heart
17	chr9:14238400-14240600	Weak transcription	Brain Substantia Nigra	brain
18	chr9:14238400-14240600	Weak transcription	Gastric	stomach
19	chr9:14238400-14240600	Weak transcription	Pancreas	Pancrea
20	chr9:14238400-14243000	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr9:14238400-14246200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr9:14238600-14240400	Weak transcription	Brain Cingulate Gyrus	brain
23	chr9:14238600-14240600	Weak transcription	Liver	Liver
24	chr9:14238600-14240600	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr9:14238600-14240600	Weak transcription	Fetal Muscle Leg	muscle
26	chr9:14238600-14241400	Enhancers	Colon Smooth Muscle	Colon
27	chr9:14238800-14240200	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr9:14238800-14240400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
29	chr9:14238800-14240400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr9:14238800-14240400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr9:14238800-14240600	Weak transcription	H1 Cell Line	embryonic stem cell
32	chr9:14238800-14240600	Weak transcription	H9 Cell Line	embryonic stem cell
33	chr9:14238800-14240600	Weak transcription	Left Ventricle	heart
34	chr9:14238800-14240600	Weak transcription	Psoas Muscle	Psoas
35	chr9:14238800-14240600	Weak transcription	Right Atrium	heart
36	chr9:14238800-14240800	Weak transcription	Ovary	ovary
37	chr9:14238800-14245600	Weak transcription	Placenta	Placenta
38	chr9:14238800-14246200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr9:14238800-14246200	Weak transcription	Aorta	Aorta
40	chr9:14238800-14249800	Weak transcription	Fetal Intestine Small	intestine
41	chr9:14238800-14250000	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr9:14239000-14240200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr9:14239000-14240200	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr9:14239000-14240200	Enhancers	Fetal Brain Female	brain
45	chr9:14239000-14240200	Weak transcription	Rectal Smooth Muscle	rectum
46	chr9:14239000-14240200	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr9:14239000-14240400	Weak transcription	NHLF	lung
48	chr9:14239000-14240600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
49	chr9:14239000-14240800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr9:14239000-14240800	Enhancers	NHEK	skin

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