Variant report

Variant	rs13066623
Chromosome Location	chr3:85036390-85036391
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:85029590..85031359-chr3:85035312..85037118,2	K562	blood:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs12714616	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12714617	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13075494	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13075873	0.82[EUR][1000 genomes]
rs13082518	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13092125	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13096651	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1691471	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1872552	0.83[CEU][hapmap];0.85[EUR][1000 genomes]
rs2101344	0.82[JPT][hapmap]
rs2171143	0.92[CEU][hapmap];0.90[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2326225	1.00[CHB][hapmap]
rs28693686	0.83[AMR][1000 genomes]
rs4516626	1.00[CHB][hapmap]
rs4856554	0.82[EUR][1000 genomes]
rs6791363	0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7628129	0.82[JPT][hapmap]
rs7630382	0.82[JPT][hapmap]
rs7645633	0.82[EUR][1000 genomes]
rs9309967	0.89[CEU][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9647393	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9815258	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9818659	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9821807	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9823454	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9828496	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9839708	0.84[EUR][1000 genomes]
rs9860513	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9870384	0.89[CEU][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9874302	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9876378	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9877460	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9878472	0.82[JPT][hapmap]
rs9878707	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9881257	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9883443	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][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	nsv1002058	chr3:84757044-85389876	Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1001316	chr3:84773522-85071342	Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv877091	chr3:84876250-85069287	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	esv1829788	chr3:84926769-85086403	Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv1000793	chr3:85020452-85051839	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
6	esv3419993	chr3:85030343-85663403	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85029400-85036600	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr3:85032000-85037800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:85033800-85036600	Weak transcription	Brain Hippocampus Middle	brain
4	chr3:85034200-85036600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr3:85034200-85040400	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr3:85034200-85042600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr3:85034200-85048200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr3:85035000-85037000	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr3:85035200-85041000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr3:85035600-85036600	Weak transcription	Brain Substantia Nigra	brain
11	chr3:85035600-85036800	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr3:85035600-85052800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr3:85036200-85036800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr3:85036200-85037400	Enhancers	Fetal Muscle Leg	muscle
15	chr3:85036200-85037600	Enhancers	Brain Anterior Caudate	brain
16	chr3:85036200-85037800	Enhancers	Brain Angular Gyrus	brain
17	chr3:85036200-85037800	Enhancers	Fetal Lung	lung
18	chr3:85036200-85038400	Enhancers	Brain Cingulate Gyrus	brain

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