Variant report

Variant	rs55873664
Chromosome Location	chr12:86343465-86343466
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs17855890	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs55773154	0.83[AFR][1000 genomes]
rs55797108	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs55908819	0.83[AFR][1000 genomes]
rs55935463	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs55981206	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56051740	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56224424	1.00[AFR][1000 genomes]
rs56295858	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56299996	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61929366	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61929388	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs61929396	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61929398	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61929418	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61929423	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61930918	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61930919	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61930920	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61930922	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61930923	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61930924	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61930926	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61931065	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61931067	0.87[AMR][1000 genomes];0.90[EUR][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	nsv1049179	chr12:86056376-86799188	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	esv1797806	chr12:86198935-86425608	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv559667	chr12:86318004-86416212	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:86341800-86343600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
2	chr12:86342600-86343600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr12:86343000-86344200	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr12:86343000-86346200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr12:86343200-86343600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr12:86343200-86343600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr12:86343200-86343600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
8	chr12:86343200-86344200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr12:86343200-86344600	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr12:86343200-86345600	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr12:86343200-86346600	Enhancers	iPS-15b Cell Line	embryonic stem cell
12	chr12:86343400-86343600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr12:86343400-86343600	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
14	chr12:86343400-86343600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
15	chr12:86343400-86343800	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell

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