Variant report

Variant	rs58195225
Chromosome Location	chr3:134657809-134657810
allele	G/T
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]
rs13316480	0.87[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs16842308	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs28718846	0.87[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4429672	1.00[ASN][1000 genomes]
rs58193970	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61413999	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270312	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270314	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270315	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270317	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270318	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270321	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs62270322	1.00[ASN][1000 genomes]
rs62273061	1.00[ASN][1000 genomes]
rs66569551	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6764013	1.00[ASN][1000 genomes]
rs73214171	1.00[ASN][1000 genomes]
rs73214194	1.00[ASN][1000 genomes]
rs73218226	1.00[ASN][1000 genomes]
rs7614716	1.00[ASN][1000 genomes]
rs7636773	1.00[ASN][1000 genomes]
rs983401	1.00[ASN][1000 genomes]
rs9848835	1.00[ASN][1000 genomes]
rs9849294	1.00[ASN][1000 genomes]
rs9859830	1.00[ASN][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	nsv1009634	chr3:134543259-134820208	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv536720	chr3:134543259-134820208	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1000277	chr3:134546080-134970837	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:134650600-134660600	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr3:134653800-134659000	Enhancers	Brain Germinal Matrix	brain
3	chr3:134654600-134658200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:134654800-134658800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:134655000-134659400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr3:134655600-134658400	Enhancers	H1 Cell Line	embryonic stem cell
7	chr3:134655800-134658000	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr3:134655800-134658200	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr3:134655800-134658200	Enhancers	Fetal Brain Female	brain
10	chr3:134655800-134658600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr3:134655800-134658600	Enhancers	Fetal Brain Male	brain
12	chr3:134656200-134658000	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr3:134656600-134658200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr3:134656600-134673000	Weak transcription	GM12878-XiMat	blood
15	chr3:134657000-134658600	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
16	chr3:134657400-134658000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr3:134657400-134658200	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
18	chr3:134657400-134658600	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
19	chr3:134657400-134658600	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
20	chr3:134657400-134658800	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr3:134657600-134658000	Weak transcription	Brain Anterior Caudate	brain
22	chr3:134657600-134659400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
23	chr3:134657800-134660800	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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