Variant report

Variant	rs11090520
Chromosome Location	chr22:28429977-28429978
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	chr22:28421666..28423671-chr22:28428407..28430041,2	K562	blood:
2	chr22:28421365..28425106-chr22:28428246..28431609,4	MCF-7	breast:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs17409164	1.00[AFR][1000 genomes]
rs17409195	1.00[AFR][1000 genomes]
rs17480516	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs17483415	0.93[EUR][1000 genomes]
rs738398	1.00[AFR][1000 genomes]
rs738455	0.90[EUR][1000 genomes]
rs738474	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9608663	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9608665	0.85[EUR][1000 genomes]
rs9608666	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs9608672	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9613549	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs9613552	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9613558	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs9613560	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9613564	0.90[EUR][1000 genomes]
rs9613568	0.93[EUR][1000 genomes]
rs9613569	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs9613573	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9613575	0.80[EUR][1000 genomes]
rs9613591	1.00[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062877	chr22:28163507-28866350	Weak transcription Enhancers Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:28409400-28430400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr22:28416600-28431000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr22:28423400-28431800	Enhancers	Fetal Thymus	thymus
4	chr22:28425400-28430400	Weak transcription	HSMMtube	muscle
5	chr22:28425400-28430600	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr22:28425600-28430200	Weak transcription	HSMM	muscle
7	chr22:28425600-28430600	Weak transcription	NH-A	brain
8	chr22:28425600-28430600	Weak transcription	Osteobl	bone
9	chr22:28425600-28430800	Weak transcription	Thymus	Thymus
10	chr22:28425800-28430200	Weak transcription	Aorta	Aorta
11	chr22:28425800-28430200	Weak transcription	Ovary	ovary
12	chr22:28425800-28430400	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr22:28426000-28430400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr22:28426200-28430000	Weak transcription	Right Ventricle	heart
15	chr22:28426200-28430200	Weak transcription	Duodenum Mucosa	Duodenum
16	chr22:28426200-28430200	Weak transcription	Fetal Intestine Large	intestine
17	chr22:28426200-28430200	Weak transcription	NHLF	lung
18	chr22:28426200-28430400	Weak transcription	NHDF-Ad	bronchial
19	chr22:28426400-28430000	Weak transcription	Psoas Muscle	Psoas
20	chr22:28426400-28430400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr22:28426400-28430400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr22:28426400-28430400	Weak transcription	Stomach Mucosa	stomach
23	chr22:28426400-28430600	Weak transcription	Gastric	stomach
24	chr22:28426400-28430600	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr22:28426400-28432000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr22:28426400-28433000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr22:28426600-28430200	Weak transcription	Fetal Intestine Small	intestine
28	chr22:28426600-28430600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr22:28426800-28430400	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr22:28426800-28430800	Weak transcription	Primary T cells from cord blood	blood
31	chr22:28427000-28430200	Weak transcription	Brain Anterior Caudate	brain
32	chr22:28427000-28430200	Weak transcription	Brain Substantia Nigra	brain
33	chr22:28427000-28430200	Weak transcription	Rectal Smooth Muscle	rectum
34	chr22:28427000-28430600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr22:28427200-28430000	Weak transcription	Brain Angular Gyrus	brain
36	chr22:28427200-28430000	Weak transcription	Brain Hippocampus Middle	brain
37	chr22:28427200-28430400	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr22:28427400-28430000	Weak transcription	Brain Cingulate Gyrus	brain
39	chr22:28427400-28430000	Weak transcription	Fetal Brain Female	brain
40	chr22:28427400-28430200	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr22:28427400-28442200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr22:28427600-28430200	Weak transcription	Esophagus	oesophagus
43	chr22:28427600-28430200	Weak transcription	Fetal Muscle Trunk	muscle
44	chr22:28427600-28430200	Weak transcription	Pancreas	Pancrea
45	chr22:28427600-28430400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr22:28427600-28431200	Weak transcription	HepG2	liver
47	chr22:28428000-28430200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr22:28428000-28431200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr22:28428200-28430200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr22:28428400-28430600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links