Variant report

Variant	rs16859473
Chromosome Location	chr2:172406445-172406446
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	chr2:172289710..172291667-chr2:172405473..172408382,2	K562	blood:

Variant related genes	Relation type
ENSG00000115827	Chromatin interaction
ENSG00000123600	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11889130	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11896718	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16859480	1.00[EUR][1000 genomes]
rs16859496	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16859549	1.00[YRI][hapmap]
rs34029335	1.00[EUR][1000 genomes]
rs35421358	1.00[EUR][1000 genomes]
rs4668408	1.00[EUR][1000 genomes]
rs4668409	1.00[EUR][1000 genomes]
rs56188807	1.00[EUR][1000 genomes]
rs57826998	1.00[EUR][1000 genomes]
rs60892098	1.00[EUR][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	esv1832950	chr2:172283513-172488111	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers 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	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:172381000-172410400	Weak transcription	Fetal Thymus	thymus
2	chr2:172381200-172407200	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr2:172381200-172410400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr2:172386400-172419800	Weak transcription	Lung	lung
5	chr2:172387200-172413800	Weak transcription	Spleen	Spleen
6	chr2:172388000-172411400	Weak transcription	Rectal Smooth Muscle	rectum
7	chr2:172388200-172411000	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr2:172388400-172411800	Weak transcription	Brain Substantia Nigra	brain
9	chr2:172388600-172412400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr2:172388800-172407400	Weak transcription	HSMM	muscle
11	chr2:172388800-172410400	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr2:172388800-172411000	Weak transcription	Brain Hippocampus Middle	brain
13	chr2:172388800-172413800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr2:172388800-172413800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr2:172388800-172414800	Weak transcription	Brain Angular Gyrus	brain
16	chr2:172388800-172414800	Weak transcription	Brain Cingulate Gyrus	brain
17	chr2:172389000-172411000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr2:172392400-172412200	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr2:172394000-172411200	Weak transcription	NHLF	lung
20	chr2:172396600-172408200	Weak transcription	Primary neutrophils fromperipheralblood	blood
21	chr2:172396600-172414400	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr2:172397000-172410200	Weak transcription	Placenta	Placenta
23	chr2:172398200-172408400	Weak transcription	Fetal Intestine Small	intestine
24	chr2:172398200-172414000	Weak transcription	Brain Anterior Caudate	brain
25	chr2:172398400-172411200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
26	chr2:172399400-172407400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr2:172399400-172409400	Weak transcription	NHEK	skin
28	chr2:172399400-172410400	Weak transcription	Right Ventricle	heart
29	chr2:172399400-172411000	Weak transcription	Colon Smooth Muscle	Colon
30	chr2:172399600-172409600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr2:172400000-172409800	Weak transcription	K562	blood
32	chr2:172400000-172410200	Weak transcription	Duodenum Mucosa	Duodenum
33	chr2:172400000-172410200	Weak transcription	Fetal Muscle Trunk	muscle
34	chr2:172400000-172410200	Weak transcription	Ovary	ovary
35	chr2:172400000-172410400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr2:172400000-172410400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr2:172400000-172410400	Weak transcription	Primary hematopoietic stem cells	blood
38	chr2:172400000-172410400	Weak transcription	Left Ventricle	heart
39	chr2:172400000-172410400	Weak transcription	Stomach Smooth Muscle	stomach
40	chr2:172400000-172410800	Weak transcription	Fetal Lung	lung
41	chr2:172400000-172411000	Weak transcription	Placenta Amnion	Placenta Amnion
42	chr2:172400000-172416400	Weak transcription	Gastric	stomach
43	chr2:172400200-172413800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr2:172401400-172407200	Weak transcription	Monocytes-CD14+_RO01746	blood
45	chr2:172401400-172410400	Weak transcription	Fetal Stomach	stomach
46	chr2:172401400-172411200	Weak transcription	HUVEC	blood vessel
47	chr2:172401600-172406800	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr2:172402000-172406800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr2:172403200-172407200	Weak transcription	NHDF-Ad	bronchial
50	chr2:172403400-172407400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links