Variant report

Variant	rs58650388
Chromosome Location	chr10:22900767-22900768
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:22900526-22901226	K562	blood:	n/a	n/a
2	ETS1	chr10:22900697-22901049	GM12878	blood:	n/a	chr10:22900939-22900952 chr10:22900932-22900945
3	RUNX3	chr10:22900448-22901109	GM12878	blood:	n/a	n/a
4	POU2F2	chr10:22900630-22901068	GM12878	blood:	n/a	n/a
5	MTA3	chr10:22900614-22901313	GM12878	blood:	n/a	n/a
6	RUNX3	chr10:22900684-22901136	GM12878	blood:	n/a	n/a
7	EP300	chr10:22900458-22900962	GM12878	blood:	n/a	chr10:22900688-22900702
8	POU2F2	chr10:22900678-22900967	GM12891	blood:	n/a	n/a
9	SMC3	chr10:22900672-22900996	GM12878	blood:	n/a	n/a
10	RCOR1	chr10:22900761-22900976	GM12878	blood:	n/a	n/a
11	EBF1	chr10:22900737-22900794	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr10:22896470..22900066-chr10:22900666..22904844,7	K562	blood:
2	chr10:22887541..22890233-chr10:22900677..22902748,2	K562	blood:
3	chr10:22898960..22901520-chr10:22921454..22923581,2	K562	blood:

Variant related genes	Relation type
PIP4K2A	TF binding region
ENSG00000150867	Chromatin interaction

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

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

rs_ID	r²[population]
rs10508649	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16922558	0.81[ASN][1000 genomes]
rs16922574	0.81[ASN][1000 genomes]
rs56412842	0.81[ASN][1000 genomes]
rs56928466	0.96[ASN][1000 genomes]
rs57364753	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58429682	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs58851815	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60284138	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs74121814	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs74121818	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs74121820	0.86[EUR][1000 genomes];0.96[ASN][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	esv1830947	chr10:22881196-23004381	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:22844200-22904800	Weak transcription	Rectal Smooth Muscle	rectum
2	chr10:22858200-22904000	Weak transcription	Colonic Mucosa	Colon
3	chr10:22862400-22902000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr10:22880000-22906800	Weak transcription	Colon Smooth Muscle	Colon
5	chr10:22887200-22902400	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr10:22888800-22905000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr10:22889400-22904400	Weak transcription	Hela-S3	cervix
8	chr10:22891000-22901400	Weak transcription	Gastric	stomach
9	chr10:22891000-22904800	Weak transcription	Right Ventricle	heart
10	chr10:22891200-22904800	Weak transcription	NHLF	lung
11	chr10:22893600-22902000	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr10:22894000-22902600	Weak transcription	Right Atrium	heart
13	chr10:22894000-22906600	Weak transcription	Ovary	ovary
14	chr10:22894200-22904600	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr10:22894600-22903000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr10:22894600-22904400	Weak transcription	NHDF-Ad	bronchial
17	chr10:22894600-22904600	Weak transcription	NHEK	skin
18	chr10:22894600-22905000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr10:22894800-22904600	Weak transcription	Adipose Nuclei	Adipose
20	chr10:22894800-22913000	Weak transcription	Fetal Kidney	kidney
21	chr10:22895400-22904600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr10:22895600-22901000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr10:22895600-22902000	Weak transcription	Pancreas	Pancrea
24	chr10:22895600-22902200	Weak transcription	Placenta	Placenta
25	chr10:22895600-22906000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr10:22895800-22904600	Weak transcription	HUVEC	blood vessel
27	chr10:22895800-22904800	Weak transcription	NH-A	brain
28	chr10:22896000-22902600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
29	chr10:22896200-22901600	Enhancers	Primary neutrophils fromperipheralblood	blood
30	chr10:22896400-22904000	Weak transcription	Duodenum Mucosa	Duodenum
31	chr10:22896400-22904600	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr10:22896400-22904600	Weak transcription	A549	lung
33	chr10:22896400-22904800	Weak transcription	Osteobl	bone
34	chr10:22896600-22902200	Weak transcription	Esophagus	oesophagus
35	chr10:22896600-22904600	Weak transcription	HSMM	muscle
36	chr10:22897200-22901000	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr10:22897200-22907000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr10:22897400-22901200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr10:22897400-22901200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
40	chr10:22897400-22901400	Weak transcription	Lung	lung
41	chr10:22897400-22901800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr10:22897400-22904800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr10:22897600-22904800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr10:22897800-22901000	Weak transcription	Aorta	Aorta
45	chr10:22897800-22901000	Weak transcription	Fetal Intestine Small	intestine
46	chr10:22897800-22901400	Weak transcription	Fetal Stomach	stomach
47	chr10:22897800-22904000	Weak transcription	Left Ventricle	heart
48	chr10:22897800-22904600	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr10:22898000-22904000	Weak transcription	Stomach Mucosa	stomach
50	chr10:22898000-22904400	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