Variant report

Variant	rs12339737
Chromosome Location	chr9:27125056-27125057
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	chr9:27114695..27116230-chr9:27123425..27125646,2	MCF-7	breast:

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs12555409	0.80[EUR][1000 genomes]
rs4242697	0.88[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs4242698	0.87[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.91[EUR][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	nsv517269	chr9:26945976-27137242	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv892862	chr9:26956663-27190655	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	nsv1016733	chr9:27073650-27264576	Enhancers Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1022313	chr9:27083369-27250505	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1017802	chr9:27088160-27262682	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1019104	chr9:27088160-27358206	Enhancers Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
7	nsv613945	chr9:27121906-27148475	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:27122800-27127200	Enhancers	Fetal Muscle Leg	muscle
2	chr9:27122800-27150800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr9:27123000-27127200	Enhancers	Fetal Stomach	stomach
4	chr9:27123200-27126000	Enhancers	Muscle Satellite Cultured Cells	--
5	chr9:27123200-27127000	Enhancers	Osteobl	bone
6	chr9:27123600-27129400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr9:27123800-27125200	Enhancers	Psoas Muscle	Psoas
8	chr9:27123800-27127400	Enhancers	Fetal Lung	lung
9	chr9:27124000-27125200	Enhancers	Fetal Muscle Trunk	muscle
10	chr9:27124000-27126200	Enhancers	Skeletal Muscle Female	skeletal muscle
11	chr9:27124000-27126200	Enhancers	HUVEC	blood vessel
12	chr9:27124000-27126400	Enhancers	NH-A	brain
13	chr9:27124000-27127000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr9:27124000-27127000	Enhancers	NHLF	lung
15	chr9:27124200-27125200	Enhancers	Left Ventricle	heart
16	chr9:27124200-27125200	Enhancers	Lung	lung
17	chr9:27124200-27125200	Enhancers	Spleen	Spleen
18	chr9:27124200-27125600	Enhancers	Adipose Nuclei	Adipose
19	chr9:27124200-27125800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr9:27124200-27126200	Enhancers	Hela-S3	cervix
21	chr9:27124200-27126400	Enhancers	HSMMtube	muscle
22	chr9:27124200-27126600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr9:27124200-27126600	Enhancers	HSMM	muscle
24	chr9:27124200-27126800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr9:27124200-27126800	Enhancers	HMEC	breast
26	chr9:27124200-27127000	Enhancers	Colon Smooth Muscle	Colon
27	chr9:27124400-27125200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr9:27124400-27125200	Enhancers	Brain Germinal Matrix	brain
29	chr9:27124400-27125200	Enhancers	Pancreas	Pancrea
30	chr9:27124400-27125200	Enhancers	Right Atrium	heart
31	chr9:27124400-27125800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr9:27124400-27126800	Enhancers	Duodenum Smooth Muscle	Duodenum
33	chr9:27124400-27126800	Enhancers	A549	lung
34	chr9:27124400-27127000	Enhancers	Ovary	ovary
35	chr9:27124400-27127200	Enhancers	Rectal Smooth Muscle	rectum
36	chr9:27124600-27125600	Enhancers	Brain Hippocampus Middle	brain
37	chr9:27124600-27125600	Enhancers	NHDF-Ad	bronchial
38	chr9:27124600-27125800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr9:27124600-27126200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr9:27124600-27126200	Enhancers	Stomach Mucosa	stomach
41	chr9:27124600-27126800	Enhancers	Stomach Smooth Muscle	stomach
42	chr9:27124600-27129000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr9:27124800-27125200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr9:27124800-27125200	Enhancers	Brain Cingulate Gyrus	brain
45	chr9:27124800-27125200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
46	chr9:27124800-27125200	Enhancers	Esophagus	oesophagus
47	chr9:27124800-27125200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
48	chr9:27124800-27125200	Active TSS	Fetal Brain Male	brain
49	chr9:27124800-27125200	Flanking Active TSS	NHEK	skin
50	chr9:27124800-27125400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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