Variant report

Variant	rs1354598
Chromosome Location	chr3:24397649-24397650
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:24395912..24398786-chr3:24427105..24429295,2	K562	blood:
2	chr3:24397202..24400134-chr3:24536784..24538777,2	K562	blood:

Variant related genes	Relation type
ENSG00000228791	Chromatin interaction

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

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

rs_ID	r²[population]
rs17014565	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56725603	0.85[AFR][1000 genomes]
rs73041659	1.00[AFR][1000 genomes]
rs73825623	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73825625	1.00[AFR][1000 genomes];1.00[AMR][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	nsv834640	chr3:24339779-24493605	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24360400-24418000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:24390400-24401000	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr3:24391000-24398600	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr3:24391200-24401000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr3:24393600-24403800	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr3:24394000-24399200	Weak transcription	Rectal Smooth Muscle	rectum
7	chr3:24394000-24399400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr3:24394000-24403200	Weak transcription	NHDF-Ad	bronchial
9	chr3:24394000-24406600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr3:24394000-24406600	Weak transcription	Ovary	ovary
11	chr3:24394000-24406600	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr3:24394000-24407800	Weak transcription	Pancreas	Pancrea
13	chr3:24394000-24407800	Weak transcription	Stomach Smooth Muscle	stomach
14	chr3:24394000-24431400	Weak transcription	Gastric	stomach
15	chr3:24394200-24403800	Weak transcription	Adipose Nuclei	Adipose
16	chr3:24394400-24403000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr3:24394800-24399200	Weak transcription	Colon Smooth Muscle	Colon
18	chr3:24394800-24401600	Weak transcription	Brain Substantia Nigra	brain
19	chr3:24395000-24399200	Weak transcription	Fetal Lung	lung
20	chr3:24395000-24404400	Weak transcription	Fetal Intestine Large	intestine
21	chr3:24395200-24397800	Weak transcription	Psoas Muscle	Psoas
22	chr3:24395200-24398400	Enhancers	K562	blood
23	chr3:24395200-24399200	Weak transcription	Fetal Kidney	kidney
24	chr3:24395200-24404400	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr3:24396400-24399200	Weak transcription	Liver	Liver
26	chr3:24396400-24401600	Weak transcription	HepG2	liver
27	chr3:24397200-24397800	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr3:24397400-24398000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr3:24397600-24398200	Enhancers	Aorta	Aorta
30	chr3:24397600-24398200	ZNF genes & repeats	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links