Variant report

Variant	rs34458671
Chromosome Location	chr9:2655708-2655709
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs2054073	0.84[EUR][1000 genomes]
rs2063570	0.91[EUR][1000 genomes]
rs2063571	0.91[EUR][1000 genomes]
rs2063572	0.91[EUR][1000 genomes]
rs34003761	1.00[EUR][1000 genomes]
rs34067270	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3421	0.91[EUR][1000 genomes]
rs34811022	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35774247	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56020844	0.91[EUR][1000 genomes]
rs58045872	1.00[EUR][1000 genomes]
rs58589975	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59546407	0.91[EUR][1000 genomes]
rs59816438	1.00[EUR][1000 genomes]
rs7034291	0.87[EUR][1000 genomes]
rs7043836	1.00[EUR][1000 genomes]
rs7043949	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73640160	0.87[EUR][1000 genomes]
rs73640161	0.87[EUR][1000 genomes]
rs73640162	0.87[EUR][1000 genomes]
rs73640163	0.87[EUR][1000 genomes]
rs73640164	0.91[EUR][1000 genomes]
rs7870478	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	nsv1020530	chr9:1870197-2658587	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv530929	chr9:1998911-2925112	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh 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	39 gene(s)	inside rSNPs	diseases
3	nsv529508	chr9:2267812-2684272	Bivalent/Poised TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv916750	chr9:2430846-2826706	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv531564	chr9:2452325-2700375	Flanking Bivalent TSS/Enh Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
6	nsv1017581	chr9:2494815-3172020	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
7	nsv539934	chr9:2494815-3172020	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:2633600-2656600	Weak transcription	Colon Smooth Muscle	Colon
2	chr9:2635200-2656200	Strong transcription	HUES48 Cell Line	embryonic stem cell
3	chr9:2635400-2656000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr9:2635400-2656800	Strong transcription	HUES64 Cell Line	embryonic stem cell
5	chr9:2635400-2656800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
6	chr9:2635800-2656000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr9:2635800-2657800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr9:2638000-2656400	Strong transcription	Fetal Muscle Trunk	muscle
9	chr9:2638400-2655800	Strong transcription	Fetal Lung	lung
10	chr9:2638400-2656400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr9:2638600-2655800	Strong transcription	Stomach Smooth Muscle	stomach
12	chr9:2638800-2656000	Strong transcription	Fetal Muscle Leg	muscle
13	chr9:2639000-2655800	Strong transcription	H1 Cell Line	embryonic stem cell
14	chr9:2639800-2656000	Strong transcription	H9 Cell Line	embryonic stem cell
15	chr9:2639800-2656000	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr9:2640000-2662200	Weak transcription	Right Atrium	heart
17	chr9:2640200-2656200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr9:2640800-2655800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr9:2640800-2655800	Strong transcription	Adipose Nuclei	Adipose
20	chr9:2641400-2668400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr9:2643000-2655800	Strong transcription	Cortex derived primary cultured neurospheres	brain
22	chr9:2643600-2657600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr9:2643800-2657000	Weak transcription	Rectal Smooth Muscle	rectum
24	chr9:2643800-2657000	Weak transcription	NHLF	lung
25	chr9:2643800-2664000	Weak transcription	Spleen	Spleen
26	chr9:2643800-2666800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr9:2644000-2667200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr9:2646000-2656800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr9:2647000-2656000	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr9:2648400-2658200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr9:2648800-2656000	Strong transcription	Pancreas	Pancrea
32	chr9:2649200-2664800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
33	chr9:2649600-2657600	Weak transcription	Gastric	stomach
34	chr9:2652400-2656000	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr9:2653000-2666600	Weak transcription	Fetal Stomach	stomach
36	chr9:2653200-2659400	Weak transcription	Aorta	Aorta
37	chr9:2653200-2660200	Weak transcription	Psoas Muscle	Psoas
38	chr9:2653600-2662800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
39	chr9:2653600-2664000	Weak transcription	Esophagus	oesophagus
40	chr9:2653800-2663600	Weak transcription	Brain Angular Gyrus	brain
41	chr9:2653800-2663800	Weak transcription	Right Ventricle	heart
42	chr9:2654000-2657000	Weak transcription	Fetal Kidney	kidney
43	chr9:2654000-2662200	Weak transcription	Brain Substantia Nigra	brain
44	chr9:2654200-2656600	Weak transcription	Fetal Heart	heart
45	chr9:2654200-2657400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr9:2654200-2660200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr9:2654200-2666800	Weak transcription	Lung	lung
48	chr9:2654400-2663400	Weak transcription	Fetal Brain Male	brain
49	chr9:2654600-2655800	Strong transcription	Brain Inferior Temporal Lobe	brain
50	chr9:2654600-2656200	Weak transcription	Brain Germinal Matrix	brain

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