Variant report

Variant	rs56729487
Chromosome Location	chr20:24458968-24458969
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	chr20:24458098..24460302-chr20:24472208..24475161,2	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs56347325	1.00[AMR][1000 genomes]
rs56354135	1.00[AMR][1000 genomes]
rs57296566	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59063859	1.00[AMR][1000 genomes]
rs59880334	1.00[AMR][1000 genomes]
rs6036827	1.00[AMR][1000 genomes]
rs60662841	1.00[AMR][1000 genomes]
rs60856209	1.00[AMR][1000 genomes]
rs61505903	1.00[AMR][1000 genomes]
rs7262897	1.00[AMR][1000 genomes]
rs7265574	1.00[AMR][1000 genomes]
rs7269292	1.00[AMR][1000 genomes]
rs7274088	1.00[AMR][1000 genomes]
rs73343340	1.00[AMR][1000 genomes]
rs73901828	1.00[AMR][1000 genomes]
rs73901836	1.00[AMR][1000 genomes]
rs73901839	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73901842	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73901843	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73901845	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73901846	1.00[AMR][1000 genomes]
rs73901848	1.00[AMR][1000 genomes]
rs73901849	1.00[AMR][1000 genomes]
rs73901853	1.00[AMR][1000 genomes]
rs73901971	1.00[AMR][1000 genomes]
rs73901972	1.00[AMR][1000 genomes]
rs73901973	1.00[AMR][1000 genomes]
rs73901974	1.00[AMR][1000 genomes]
rs73901975	1.00[AMR][1000 genomes]
rs73901980	1.00[AMR][1000 genomes]
rs73902001	1.00[AMR][1000 genomes]
rs73902579	1.00[AMR][1000 genomes]
rs73902589	1.00[AMR][1000 genomes]
rs73905117	1.00[AMR][1000 genomes]
rs73905118	1.00[AMR][1000 genomes]
rs73905119	1.00[AMR][1000 genomes]
rs73905121	1.00[AMR][1000 genomes]
rs73905122	1.00[AMR][1000 genomes]
rs73905123	1.00[AMR][1000 genomes]
rs73905409	1.00[AMR][1000 genomes]
rs73905414	0.81[AFR][1000 genomes]
rs73905419	0.81[AFR][1000 genomes]
rs8115937	1.00[AMR][1000 genomes]
rs8116915	1.00[AMR][1000 genomes]
rs8119455	0.81[AFR][1000 genomes]
rs8120500	1.00[AMR][1000 genomes]
rs9753733	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv9793	chr20:23939613-24734850	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1058146	chr20:24210196-24531087	Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv833946	chr20:24320375-24490702	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24452400-24463800	Weak transcription	Right Ventricle	heart
2	chr20:24452600-24459400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr20:24452600-24459400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr20:24453600-24459000	Weak transcription	Fetal Brain Male	brain
5	chr20:24454400-24459000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr20:24454800-24459200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr20:24456200-24459000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr20:24456200-24460200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr20:24456400-24459000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr20:24457000-24459600	Enhancers	Brain Cingulate Gyrus	brain
11	chr20:24457200-24460200	Enhancers	Brain Hippocampus Middle	brain
12	chr20:24457400-24459600	Enhancers	Brain Inferior Temporal Lobe	brain
13	chr20:24457400-24459800	Enhancers	Brain Substantia Nigra	brain
14	chr20:24457400-24460400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
15	chr20:24457400-24462400	Enhancers	Fetal Heart	heart
16	chr20:24457600-24459600	Enhancers	Brain Angular Gyrus	brain
17	chr20:24457600-24459600	Enhancers	Brain Anterior Caudate	brain
18	chr20:24457600-24470600	Weak transcription	Fetal Brain Female	brain
19	chr20:24457800-24460000	Enhancers	Left Ventricle	heart
20	chr20:24458400-24460200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
21	chr20:24458600-24459200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
22	chr20:24458600-24460400	Weak transcription	Aorta	Aorta
23	chr20:24458600-24460600	Enhancers	Right Atrium	heart
24	chr20:24458600-24460800	Enhancers	H1 Cell Line	embryonic stem cell
25	chr20:24458800-24459400	Enhancers	Fetal Muscle Leg	muscle
26	chr20:24458800-24459600	Enhancers	ES-WA7 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links