Variant report

Variant	rs62156266
Chromosome Location	chr2:98965044-98965045
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	chr2:98965022..98967401-chr2:98990088..98992625,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1010387	1.00[AFR][1000 genomes]
rs11684812	1.00[AFR][1000 genomes]
rs11684899	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs11691306	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs17427608	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17427825	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17428745	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17428990	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17429379	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17500406	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17501094	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62155312	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62155317	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62155347	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62155354	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62155355	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62155358	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62156265	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62156268	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62156269	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62156305	0.82[EUR][1000 genomes]
rs62156346	1.00[AFR][1000 genomes]
rs62156686	1.00[AFR][1000 genomes]
rs62156724	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62156744	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62157892	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62157901	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs62157907	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62157908	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62157916	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72817785	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72817792	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72817793	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72819903	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72819917	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72819919	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72819921	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72819925	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72819927	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv518056	chr2:98586842-99156296	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv1004082	chr2:98792256-98967681	Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv535833	chr2:98792256-98967681	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1008645	chr2:98915767-99010743	Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv1010466	chr2:98938886-98998109	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv1013617	chr2:98943377-99004173	Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 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	chr2:98962600-98965200	Bivalent Enhancer	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr2:98962600-98965200	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
3	chr2:98962800-98965200	Bivalent Enhancer	Primary B cells from peripheral blood	blood
4	chr2:98963400-98965600	Enhancers	Fetal Brain Male	brain
5	chr2:98964200-98965200	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
6	chr2:98964200-98965400	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
7	chr2:98964200-98965600	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr2:98964400-98965200	Flanking Active TSS	Fetal Brain Female	brain
9	chr2:98964600-98965200	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr2:98964800-98965200	Bivalent Enhancer	Brain Hippocampus Middle	brain
11	chr2:98964800-98965400	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
12	chr2:98964800-98965400	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr2:98964800-98965400	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
14	chr2:98964800-98965800	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr2:98964800-98966200	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr2:98964800-98966200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr2:98964800-98970000	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr2:98965000-98965200	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
19	chr2:98965000-98965200	Bivalent Enhancer	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr2:98965000-98965400	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
21	chr2:98965000-98965600	Bivalent Enhancer	Brain Germinal Matrix	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links