Variant report

Variant	rs60295056
Chromosome Location	chr9:16224134-16224135
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs12002237	0.81[EUR][1000 genomes]
rs12003991	0.83[EUR][1000 genomes]
rs16934273	0.92[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs16934274	0.91[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs16934286	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16934287	0.95[AFR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4410996	0.80[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs4961468	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4961469	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4961673	1.00[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs4961674	0.91[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs4961675	0.95[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs4961676	0.95[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs4961677	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4961678	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4961679	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4961683	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs56119294	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57847950	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58214307	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59560725	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73425617	0.96[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs73425648	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9406590	0.97[ASN][1000 genomes]
rs9406593	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9406594	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9406595	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9406596	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9407720	0.95[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs9407721	1.00[ASN][1000 genomes]
rs9407722	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9407725	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9407726	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9407728	0.85[ASN][1000 genomes]
rs9407729	0.85[ASN][1000 genomes]
rs9407730	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9407732	0.85[ASN][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	nsv949463	chr9:15970668-16377360	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv429999	chr9:16102066-16389100	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv892639	chr9:16190403-16242088	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv892640	chr9:16206695-16260837	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv892641	chr9:16218659-16242088	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	1 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	chr9:16218600-16233600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:16221200-16224200	Enhancers	iPS-15b Cell Line	embryonic stem cell
3	chr9:16221600-16224200	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr9:16221600-16226800	Weak transcription	Right Atrium	heart
5	chr9:16221800-16224400	Enhancers	Fetal Intestine Small	intestine
6	chr9:16221800-16224400	Enhancers	Stomach Mucosa	stomach
7	chr9:16222200-16224800	Enhancers	Fetal Intestine Large	intestine
8	chr9:16222400-16224200	Enhancers	Rectal Mucosa Donor 31	rectum
9	chr9:16223200-16224200	Enhancers	Colonic Mucosa	Colon
10	chr9:16223200-16224200	Enhancers	Sigmoid Colon	Sigmoid Colon
11	chr9:16223200-16224200	Flanking Active TSS	A549	lung
12	chr9:16223200-16224600	Enhancers	Rectal Mucosa Donor 29	rectum
13	chr9:16223400-16224200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr9:16223400-16224200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr9:16223600-16224200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr9:16223600-16224400	Enhancers	Placenta Amnion	Placenta Amnion
17	chr9:16224000-16224400	Enhancers	Duodenum Mucosa	Duodenum
18	chr9:16224000-16228600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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