Variant report

Variant	rs2489541
Chromosome Location	chr9:15144520-15144521
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1746330	0.84[AFR][1000 genomes]
rs1780152	0.94[AFR][1000 genomes]
rs1780161	0.84[AFR][1000 genomes]
rs2186027	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs2761103	0.81[AFR][1000 genomes]
rs2761110	0.87[AFR][1000 genomes]
rs2761111	0.87[AFR][1000 genomes]
rs2761114	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs2800569	0.87[AFR][1000 genomes]
rs2800592	1.00[YRI][hapmap]
rs2800614	0.84[AFR][1000 genomes]
rs2800616	0.84[AFR][1000 genomes]
rs2800619	0.84[AFR][1000 genomes]
rs2800620	0.84[AFR][1000 genomes]
rs4237137	1.00[YRI][hapmap]

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	nsv831519	chr9:15018160-15209127	Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1019567	chr9:15031398-15159409	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 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	chr9:15135400-15146200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr9:15135600-15144600	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr9:15135800-15144800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr9:15135800-15146000	Weak transcription	Brain Germinal Matrix	brain
5	chr9:15137200-15156000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr9:15137400-15147000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr9:15138800-15146600	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr9:15138800-15146800	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr9:15139000-15146600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr9:15139600-15146600	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr9:15139800-15146200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr9:15140200-15144600	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr9:15140200-15146600	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr9:15140400-15144600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr9:15141000-15144600	Weak transcription	Rectal Smooth Muscle	rectum
16	chr9:15141000-15154400	Weak transcription	Fetal Stomach	stomach
17	chr9:15143200-15146400	Weak transcription	Fetal Thymus	thymus
18	chr9:15144200-15144600	Weak transcription	Fetal Kidney	kidney
19	chr9:15144200-15144800	Enhancers	Skeletal Muscle Female	skeletal muscle
20	chr9:15144200-15145000	Enhancers	HMEC	breast
21	chr9:15144200-15145000	Enhancers	Osteobl	bone
22	chr9:15144200-15145200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr9:15144200-15145200	Enhancers	Fetal Lung	lung
24	chr9:15144400-15144600	Enhancers	HSMM	muscle
25	chr9:15144400-15144800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr9:15144400-15144800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr9:15144400-15144800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr9:15144400-15144800	Enhancers	Fetal Muscle Leg	muscle
29	chr9:15144400-15145000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr9:15144400-15145000	Enhancers	Fetal Brain Male	brain
31	chr9:15144400-15145000	Enhancers	Skeletal Muscle Male	skeletal muscle
32	chr9:15144400-15145000	Enhancers	Hela-S3	cervix
33	chr9:15144400-15145000	Enhancers	NH-A	brain
34	chr9:15144400-15145000	Enhancers	NHEK	skin
35	chr9:15144400-15145200	Enhancers	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links