Variant report

Variant	rs9670089
Chromosome Location	chr13:96498545-96498546
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11070154	0.98[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11616658	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11839843	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11840966	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11842396	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12858210	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12876018	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1537030	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17189895	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs34738594	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35423192	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35836619	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4773928	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4773929	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs57924129	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6492824	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs67447270	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7321296	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7322566	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7323150	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7323734	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7323780	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7338859	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7981923	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7983546	0.98[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7984584	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs8000849	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs8002064	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9556502	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9556503	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9556504	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9556505	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9561963	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9561964	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9561967	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9561969	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9561971	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9561973	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9561974	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9561975	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9561976	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832690	chr13:96330757-96508077	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer 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
2	esv3509289	chr13:96461000-96505090	ZNF genes & repeats Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv3509290	chr13:96461000-96505090	Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Genic enhancers	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv832691	chr13:96478098-96659823	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv900935	chr13:96497070-96631221	Strong transcription ZNF genes & repeats Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:96476000-96502600	Weak transcription	Fetal Heart	heart
2	chr13:96478000-96502600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr13:96478000-96502600	Weak transcription	Left Ventricle	heart
4	chr13:96478000-96568400	Weak transcription	Placenta	Placenta
5	chr13:96478200-96502200	Weak transcription	Stomach Smooth Muscle	stomach
6	chr13:96478200-96502600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr13:96478200-96502600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr13:96478200-96502600	Weak transcription	Aorta	Aorta
9	chr13:96478200-96502600	Weak transcription	Fetal Stomach	stomach
10	chr13:96478200-96502600	Weak transcription	Gastric	stomach
11	chr13:96478200-96502600	Weak transcription	Ovary	ovary
12	chr13:96486400-96502400	Weak transcription	Osteobl	bone
13	chr13:96486400-96502600	Weak transcription	Hela-S3	cervix
14	chr13:96486400-96502600	Weak transcription	NHLF	lung
15	chr13:96486400-96503000	Weak transcription	NHDF-Ad	bronchial
16	chr13:96486600-96502200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr13:96486600-96502200	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr13:96486600-96502400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr13:96486600-96502400	Weak transcription	HMEC	breast
20	chr13:96486600-96502600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr13:96486600-96502600	Weak transcription	NH-A	brain
22	chr13:96487000-96510000	Weak transcription	HUVEC	blood vessel
23	chr13:96490400-96502200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr13:96491000-96502200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr13:96491600-96500200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr13:96492200-96500000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr13:96493600-96502200	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr13:96493800-96502200	Weak transcription	Fetal Muscle Leg	muscle
29	chr13:96493800-96502400	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr13:96493800-96502600	Weak transcription	H9 Cell Line	embryonic stem cell
31	chr13:96493800-96502600	Weak transcription	Pancreas	Pancrea
32	chr13:96494000-96498800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr13:96494000-96500200	Weak transcription	HSMM	muscle
34	chr13:96494200-96501200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr13:96494600-96499000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
36	chr13:96495000-96502200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
37	chr13:96495000-96590800	Weak transcription	Rectal Smooth Muscle	rectum
38	chr13:96495400-96498800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr13:96495400-96499000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr13:96495800-96502200	Weak transcription	Duodenum Mucosa	Duodenum
41	chr13:96495800-96502400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr13:96495800-96502600	Weak transcription	Adipose Nuclei	Adipose
43	chr13:96496200-96502600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr13:96496800-96498800	Weak transcription	HUES48 Cell Line	embryonic stem cell
45	chr13:96496800-96502600	Weak transcription	Brain Substantia Nigra	brain
46	chr13:96497400-96500000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr13:96497800-96501200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr13:96498000-96498600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr13:96498200-96498600	ZNF genes & repeats	Fetal Muscle Trunk	muscle
50	chr13:96498200-96502400	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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