Variant report

Variant	rs12335408
Chromosome Location	chr9:108204707-108204708
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:108203737..108205613-chr9:108208927..108211820,2	K562	blood:

Variant related genes	Relation type
ENSG00000106701	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs12115775	0.82[EUR][1000 genomes]
rs12335407	0.88[EUR][1000 genomes]
rs12335518	0.88[EUR][1000 genomes]
rs12338806	0.88[EUR][1000 genomes]
rs12343676	0.88[EUR][1000 genomes]
rs12346049	0.82[EUR][1000 genomes]
rs13295239	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13297766	0.88[EUR][1000 genomes]
rs13301941	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16924597	0.88[EUR][1000 genomes]
rs16924617	0.88[EUR][1000 genomes]
rs16924620	0.88[EUR][1000 genomes]
rs28425173	0.88[EUR][1000 genomes]
rs28848179	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs34310266	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34412410	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs35754489	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4394455	0.88[EUR][1000 genomes]
rs6477441	0.82[EUR][1000 genomes]
rs6477443	0.88[EUR][1000 genomes]
rs6477444	0.88[EUR][1000 genomes]
rs7025543	0.88[EUR][1000 genomes]
rs7027252	0.88[EUR][1000 genomes]
rs71494531	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs71494532	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7467335	0.88[EUR][1000 genomes]
rs7855200	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037750	chr9:108027692-108251733	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1053973	chr9:108199177-108300186	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108195800-108209800	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr9:108197800-108206800	Weak transcription	HepG2	liver
3	chr9:108201000-108207600	Weak transcription	Stomach Smooth Muscle	stomach
4	chr9:108201000-108209600	Weak transcription	Primary monocytes fromperipheralblood	blood
5	chr9:108201200-108205000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr9:108201200-108205600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr9:108201400-108206200	Weak transcription	HSMM	muscle
8	chr9:108201400-108206600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr9:108201600-108206200	Weak transcription	Fetal Muscle Leg	muscle
10	chr9:108201600-108209800	Weak transcription	NHLF	lung
11	chr9:108202000-108206200	Weak transcription	NH-A	brain
12	chr9:108202000-108206600	Weak transcription	NHDF-Ad	bronchial
13	chr9:108202200-108206400	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr9:108202400-108206600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr9:108202600-108206600	Weak transcription	HSMMtube	muscle
16	chr9:108202800-108206200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr9:108203200-108207400	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr9:108203400-108208400	Enhancers	Brain Substantia Nigra	brain
19	chr9:108203600-108204800	Enhancers	Brain Hippocampus Middle	brain
20	chr9:108203600-108204800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
21	chr9:108203600-108205800	Enhancers	Brain Cingulate Gyrus	brain
22	chr9:108203600-108206000	Enhancers	Psoas Muscle	Psoas
23	chr9:108203600-108207400	Enhancers	Skeletal Muscle Male	skeletal muscle
24	chr9:108203800-108205800	Enhancers	Brain Inferior Temporal Lobe	brain
25	chr9:108204200-108207400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr9:108204200-108209800	Weak transcription	Right Ventricle	heart
27	chr9:108204400-108206400	Weak transcription	Brain Angular Gyrus	brain
28	chr9:108204400-108207800	Weak transcription	Right Atrium	heart
29	chr9:108204600-108206800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr9:108204600-108207400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr9:108204600-108207400	Weak transcription	Left Ventricle	heart
32	chr9:108204600-108207600	Weak transcription	Brain Anterior Caudate	brain
33	chr9:108204600-108209200	Weak transcription	Fetal Brain Male	brain
34	chr9:108204600-108209800	Weak transcription	Liver	Liver
35	chr9:108204600-108209800	Weak transcription	Fetal Heart	heart

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