Variant report

Variant	rs898414
Chromosome Location	chr3:53651291-53651292
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs1356657	1.00[YRI][hapmap]
rs1356658	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs1401493	1.00[YRI][hapmap]
rs1401498	1.00[YRI][hapmap]
rs17053285	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17053295	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2292918	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2612017	0.82[ASW][hapmap];1.00[YRI][hapmap]
rs2612020	0.93[ASN][1000 genomes]
rs2612021	0.88[YRI][hapmap]
rs2633708	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2633709	0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2633711	0.82[YRI][hapmap]
rs2633733	0.93[YRI][hapmap];0.80[AFR][1000 genomes]
rs2680653	0.89[AFR][1000 genomes]
rs2680657	0.90[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2680659	0.90[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2680667	1.00[YRI][hapmap]
rs2946522	1.00[JPT][hapmap]
rs36003262	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3774459	1.00[EUR][1000 genomes]
rs3774467	0.82[CHB][hapmap]
rs3774483	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs3774484	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3774485	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3774487	1.00[JPT][hapmap]
rs3774488	1.00[JPT][hapmap]
rs3774490	1.00[JPT][hapmap]
rs3774499	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3774500	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3774503	1.00[JPT][hapmap]
rs3774513	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3774521	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3774524	0.84[ASN][1000 genomes]
rs3821853	1.00[JPT][hapmap]
rs55999888	0.95[ASN][1000 genomes]
rs6788419	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs715781	1.00[EUR][1000 genomes]
rs72967859	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72978531	0.93[ASN][1000 genomes]
rs73840122	1.00[EUR][1000 genomes]
rs746487	1.00[YRI][hapmap]
rs7614320	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs898412	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs898413	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9311508	0.93[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9311511	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9845102	0.93[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9848595	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9857905	0.84[ASW][hapmap];0.93[YRI][hapmap]
rs9875160	0.93[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9878618	0.93[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003621	chr3:53448934-54425322	Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 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	chr3:53648800-53651600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr3:53650000-53651400	Enhancers	Fetal Kidney	kidney
3	chr3:53650000-53651400	Enhancers	Monocytes-CD14+_RO01746	blood
4	chr3:53650000-53652000	Enhancers	Fetal Lung	lung
5	chr3:53650200-53651400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr3:53650200-53651400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr3:53650200-53651400	Enhancers	Fetal Muscle Leg	muscle
8	chr3:53650200-53651400	Enhancers	Placenta	Placenta
9	chr3:53650200-53653200	Strong transcription	Fetal Intestine Small	intestine
10	chr3:53650400-53651400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr3:53650800-53651400	Enhancers	Fetal Stomach	stomach
12	chr3:53650800-53651800	Enhancers	Brain Angular Gyrus	brain
13	chr3:53650800-53653200	Enhancers	Colonic Mucosa	Colon
14	chr3:53650800-53653600	Enhancers	Rectal Mucosa Donor 31	rectum
15	chr3:53651000-53651400	Weak transcription	Duodenum Mucosa	Duodenum
16	chr3:53651000-53651400	Enhancers	Spleen	Spleen
17	chr3:53651000-53651800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr3:53651000-53652000	Enhancers	Lung	lung
19	chr3:53651200-53651400	Enhancers	Stomach Mucosa	stomach
20	chr3:53651200-53652400	Enhancers	Brain Hippocampus Middle	brain
21	chr3:53651200-53653600	Weak transcription	Fetal Intestine Large	intestine
22	chr3:53651200-53653600	Enhancers	Rectal Mucosa Donor 29	rectum
23	chr3:53651200-53653600	Enhancers	Sigmoid Colon	Sigmoid Colon

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