Variant report

Variant	rs55752620
Chromosome Location	chr10:25970856-25970857
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	chr10:25928776..25929368-chr10:25970405..25971183,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10828844	1.00[ASN][1000 genomes]
rs10828845	0.95[ASN][1000 genomes]
rs10828846	0.95[ASN][1000 genomes]
rs10828847	0.95[ASN][1000 genomes]
rs16926240	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16926262	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16926264	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17737307	0.90[ASN][1000 genomes]
rs2367979	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4749059	1.00[ASN][1000 genomes]
rs61613087	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61846904	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61846907	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61846908	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62000980	0.93[ASN][1000 genomes]
rs6482509	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7070879	0.91[AFR][1000 genomes]
rs7076933	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7080019	0.95[ASN][1000 genomes]
rs7094086	0.90[AFR][1000 genomes]
rs7095138	0.87[AFR][1000 genomes]
rs7098875	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7099100	0.88[AFR][1000 genomes]
rs7099373	0.95[ASN][1000 genomes]
rs72796368	0.98[ASN][1000 genomes]
rs72796380	0.98[ASN][1000 genomes]
rs73610338	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7906914	0.89[AFR][1000 genomes]
rs7916640	0.92[ASN][1000 genomes]
rs9664692	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[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	nsv1044482	chr10:25889919-25977270	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25962800-25993600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:25970400-25971200	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr10:25970400-25971200	Enhancers	Skeletal Muscle Female	skeletal muscle
4	chr10:25970400-25971400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr10:25970600-25971000	Enhancers	Brain Angular Gyrus	brain
6	chr10:25970600-25971200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr10:25970600-25971200	Enhancers	Right Atrium	heart
8	chr10:25970800-25971000	Enhancers	Brain Anterior Caudate	brain
9	chr10:25970800-25971000	Enhancers	Brain Hippocampus Middle	brain
10	chr10:25970800-25971000	Enhancers	Fetal Heart	heart
11	chr10:25970800-25971000	Enhancers	Pancreatic Islets	Pancreatic Islet
12	chr10:25970800-25971000	Enhancers	Skeletal Muscle Male	skeletal muscle
13	chr10:25970800-25971200	Enhancers	Brain Cingulate Gyrus	brain
14	chr10:25970800-25971200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
15	chr10:25970800-25971200	Flanking Active TSS	Brain Substantia Nigra	brain
16	chr10:25970800-25971200	Enhancers	Rectal Smooth Muscle	rectum
17	chr10:25970800-25971200	Enhancers	Right Ventricle	heart
18	chr10:25970800-25971600	Enhancers	K562	blood
19	chr10:25970800-25971800	Enhancers	Left Ventricle	heart
20	chr10:25970800-25972000	Enhancers	Fetal Muscle Leg	muscle
21	chr10:25970800-25972400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links