Variant report

Variant	rs62188088
Chromosome Location	chr2:184123204-184123205
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1462531	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17707250	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17707395	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17707433	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17707584	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17708186	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17757979	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17758140	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17759033	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17759145	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62188074	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62188079	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62188084	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62188085	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62188095	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62188096	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62188098	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62188100	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009882	chr2:183213152-184171519	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv875485	chr2:183827018-184195265	Flanking Active TSS Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv1010799	chr2:183855680-184244721	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
4	nsv536072	chr2:183855680-184244721	Flanking Active TSS Strong transcription ZNF genes & repeats Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
5	nsv583951	chr2:184121475-184142975	Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:184122800-184123600	Enhancers	H9 Cell Line	embryonic stem cell
2	chr2:184123000-184123400	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr2:184123000-184123600	Enhancers	iPS-20b Cell Line	embryonic stem cell
4	chr2:184123000-184123800	Enhancers	H1 Cell Line	embryonic stem cell
5	chr2:184123000-184123800	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr2:184123000-184123800	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr2:184123000-184123800	Enhancers	Brain Substantia Nigra	brain
8	chr2:184123000-184124200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr2:184123200-184123800	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr2:184123200-184123800	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr2:184123200-184124000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links