Variant report

Variant	rs1898558
Chromosome Location	chr2:190477085-190477086
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:190442674..190450266-chr2:190472603..190483585,23	K562	blood:
2	chr2:190476983..190479563-chr2:190480733..190482678,3	K562	blood:
3	chr2:190441425..190452696-chr2:190467093..190481176,34	K562	blood:
4	chr2:188410825..188412949-chr2:190475105..190477931,2	K562	blood:
5	chr2:190304755..190306689-chr2:190476838..190478787,2	K562	blood:

Variant related genes	Relation type
ENSG00000138449	Chromatin interaction
ENSG00000115368	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10188692	0.95[AFR][1000 genomes]
rs12986707	0.83[EUR][1000 genomes]
rs13025114	0.92[EUR][1000 genomes]
rs2099608	0.92[EUR][1000 genomes]
rs7580851	0.92[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	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 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	chr2:190469600-190477600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr2:190470800-190477600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr2:190472800-190477800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr2:190473800-190478000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr2:190474000-190477400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr2:190474400-190477400	Weak transcription	HSMM	muscle
7	chr2:190474400-190477400	Weak transcription	NHEK	skin
8	chr2:190474600-190477800	Enhancers	Fetal Heart	heart
9	chr2:190474800-190477200	Weak transcription	Stomach Mucosa	stomach
10	chr2:190474800-190477400	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr2:190475000-190477200	Weak transcription	Osteobl	bone
12	chr2:190475000-190477400	Weak transcription	NHDF-Ad	bronchial
13	chr2:190475200-190477200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr2:190475400-190477200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr2:190475400-190477600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr2:190475800-190477800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr2:190476000-190477800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr2:190476400-190477600	Enhancers	K562	blood
19	chr2:190476600-190477400	Enhancers	HepG2	liver
20	chr2:190476600-190477600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr2:190476800-190477200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr2:190476800-190477200	Enhancers	Fetal Muscle Trunk	muscle
23	chr2:190476800-190477200	Enhancers	Right Atrium	heart
24	chr2:190476800-190477200	Enhancers	A549	lung
25	chr2:190476800-190477400	Enhancers	Fetal Lung	lung
26	chr2:190476800-190477600	Enhancers	Ovary	ovary
27	chr2:190476800-190477600	Enhancers	Skeletal Muscle Female	skeletal muscle
28	chr2:190476800-190477800	Enhancers	Primary hematopoietic stem cells	blood
29	chr2:190476800-190477800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr2:190476800-190477800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr2:190476800-190477800	Enhancers	NHLF	lung
32	chr2:190476800-190478600	Flanking Active TSS	Hela-S3	cervix
33	chr2:190476800-190479600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr2:190476800-190480600	Enhancers	Placenta	Placenta
35	chr2:190477000-190477200	Enhancers	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links