Variant report

Variant	rs16829628
Chromosome Location	chr2:188907395-188907396
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12987446	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12990029	0.84[EUR][1000 genomes]
rs12992671	0.80[EUR][1000 genomes]
rs13006933	0.85[EUR][1000 genomes]
rs1371530	1.00[ASW][hapmap];0.87[YRI][hapmap];0.88[AFR][1000 genomes]
rs16829631	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs34511378	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs34699014	0.83[EUR][1000 genomes]
rs67082838	0.83[EUR][1000 genomes]
rs67732490	0.88[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs68028976	0.80[EUR][1000 genomes]
rs72903888	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72907984	0.85[EUR][1000 genomes]
rs72909886	0.83[EUR][1000 genomes]
rs7565935	0.88[AFR][1000 genomes];0.84[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	nsv533353	chr2:188498301-189024655	Weak transcription Enhancers Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv875597	chr2:188573244-188916290	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv584041	chr2:188644642-188928433	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv523293	chr2:188774681-188928433	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv875601	chr2:188871436-188934777	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:188892600-188911400	Weak transcription	Aorta	Aorta
2	chr2:188899600-188912400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr2:188901800-188908200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
4	chr2:188904400-188912400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr2:188904800-188907400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr2:188905000-188909800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr2:188905400-188923000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr2:188905600-188915200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr2:188905600-188915600	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr2:188906600-188907600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr2:188906600-188908800	Strong transcription	ES-I3 Cell Line	embryonic stem cell
12	chr2:188906800-188907800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr2:188906800-188908000	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr2:188907000-188907600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr2:188907000-188907600	Enhancers	NHDF-Ad	bronchial
16	chr2:188907000-188907800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr2:188907000-188915600	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr2:188907000-188916000	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr2:188907200-188909000	Strong transcription	HUES48 Cell Line	embryonic stem cell

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