Variant report

Variant	rs16986425
Chromosome Location	chr22:28830089-28830090
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr22:28828789..28831593-chr22:28834204..28836919,2	K562	blood:
2	chr22:28822807..28825089-chr22:28828266..28830799,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10483149	1.00[AFR][1000 genomes]
rs16986374	1.00[AFR][1000 genomes]
rs16986390	1.00[AFR][1000 genomes]
rs16986392	1.00[AFR][1000 genomes]
rs16986403	1.00[AFR][1000 genomes]
rs16986405	1.00[AFR][1000 genomes]
rs16986408	1.00[AFR][1000 genomes]
rs16986409	1.00[AFR][1000 genomes]
rs16986410	1.00[AFR][1000 genomes]
rs16986419	0.93[AFR][1000 genomes]
rs16986422	1.00[AFR][1000 genomes]
rs16986435	0.97[AFR][1000 genomes]
rs16986449	0.97[AFR][1000 genomes]
rs16986454	0.97[AFR][1000 genomes]
rs16986458	0.90[AFR][1000 genomes]
rs16986471	0.97[AFR][1000 genomes]
rs16986480	0.97[AFR][1000 genomes]
rs16986487	0.97[AFR][1000 genomes]
rs16986494	0.97[AFR][1000 genomes]
rs16986542	0.97[AFR][1000 genomes]
rs16986546	0.97[AFR][1000 genomes]
rs17881716	0.90[AFR][1000 genomes]
rs57188662	0.81[AFR][1000 genomes]
rs58065411	0.97[AFR][1000 genomes]
rs58858940	0.97[AFR][1000 genomes]
rs59463287	0.97[AFR][1000 genomes]
rs60435869	0.97[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062877	chr22:28163507-28866350	Weak transcription Enhancers Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1067544	chr22:28755418-29055246	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
3	nsv544674	chr22:28755418-29055246	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
4	nsv588880	chr22:28807277-29001789	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:28820800-28837400	Weak transcription	HSMMtube	muscle
2	chr22:28821400-28831200	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr22:28821400-28836600	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr22:28822200-28837800	Weak transcription	Left Ventricle	heart
5	chr22:28823000-28837000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr22:28827000-28831400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr22:28827000-28837000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr22:28827200-28830400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr22:28827200-28830600	Weak transcription	Ovary	ovary
10	chr22:28827200-28830800	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr22:28827200-28831200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr22:28827200-28831200	Weak transcription	Fetal Lung	lung
13	chr22:28827200-28831400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr22:28827200-28831400	Weak transcription	Adipose Nuclei	Adipose
15	chr22:28827200-28831600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr22:28827200-28831600	Weak transcription	Colon Smooth Muscle	Colon
17	chr22:28827200-28831800	Weak transcription	NHDF-Ad	bronchial
18	chr22:28827200-28832000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr22:28827200-28833600	Weak transcription	Psoas Muscle	Psoas
20	chr22:28827200-28836200	Weak transcription	Brain Cingulate Gyrus	brain
21	chr22:28827200-28836200	Weak transcription	Brain Germinal Matrix	brain
22	chr22:28827200-28836400	Weak transcription	Brain Anterior Caudate	brain
23	chr22:28827200-28836400	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr22:28827200-28837400	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr22:28827400-28831000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr22:28827400-28834200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr22:28828800-28830400	Enhancers	Fetal Brain Female	brain
28	chr22:28829000-28830800	Weak transcription	Dnd41	blood
29	chr22:28829400-28830600	Weak transcription	Fetal Brain Male	brain
30	chr22:28829400-28834800	Weak transcription	Osteobl	bone
31	chr22:28829400-28837600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links