Variant report

Variant	rs2404885
Chromosome Location	chr20:23099131-23099132
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	chr20:23098919..23101033-chr20:23112004..23114138,2	K562	blood:

Variant related genes	Relation type
ENSG00000233746	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11697283	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13036769	0.95[EUR][1000 genomes]
rs1320561	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1338945	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1835700	0.86[EUR][1000 genomes]
rs6083004	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6113942	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6132564	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6137830	0.97[ASN][1000 genomes]
rs6137832	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8122415	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs946368	0.98[AMR][1000 genomes];0.99[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	esv2758516	chr20:23029404-23173240	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
2	esv2758789	chr20:23029404-23179604	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:23085800-23114600	Enhancers	Placenta	Placenta
2	chr20:23088000-23100000	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr20:23091200-23100600	Enhancers	Dnd41	blood
4	chr20:23092400-23099600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr20:23093000-23103200	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr20:23095200-23100200	Weak transcription	Right Atrium	heart
7	chr20:23095200-23100400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr20:23095600-23099600	Weak transcription	Left Ventricle	heart
9	chr20:23095600-23100000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr20:23096000-23102600	Weak transcription	Primary hematopoietic stem cells	blood
11	chr20:23096200-23099800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr20:23097200-23100000	Enhancers	Lung	lung
13	chr20:23097200-23100000	Enhancers	GM12878-XiMat	blood
14	chr20:23097200-23100800	Enhancers	Primary neutrophils fromperipheralblood	blood
15	chr20:23097200-23102000	Enhancers	Fetal Muscle Leg	muscle
16	chr20:23097400-23099600	Enhancers	Monocytes-CD14+_RO01746	blood
17	chr20:23097400-23100000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr20:23097400-23100000	Weak transcription	Brain Hippocampus Middle	brain
19	chr20:23097400-23100200	Weak transcription	Fetal Thymus	thymus
20	chr20:23097600-23099200	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr20:23097600-23099400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr20:23097600-23099400	Weak transcription	Stomach Smooth Muscle	stomach
23	chr20:23097600-23100200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr20:23097600-23101400	Weak transcription	K562	blood
25	chr20:23097600-23110200	Weak transcription	Pancreas	Pancrea
26	chr20:23097800-23099200	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr20:23097800-23099600	Weak transcription	Adipose Nuclei	Adipose
28	chr20:23097800-23100000	Weak transcription	HUVEC	blood vessel
29	chr20:23097800-23100400	Enhancers	Fetal Muscle Trunk	muscle
30	chr20:23098000-23099800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr20:23098000-23100200	Weak transcription	NHEK	skin
32	chr20:23098000-23106000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr20:23098800-23099200	Weak transcription	Esophagus	oesophagus
34	chr20:23098800-23099600	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr20:23098800-23100400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr20:23098800-23100800	Weak transcription	Right Ventricle	heart
37	chr20:23098800-23101600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr20:23098800-23102000	Enhancers	Spleen	Spleen
39	chr20:23099000-23099400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr20:23099000-23099400	Weak transcription	Placenta Amnion	Placenta Amnion

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links