Variant report

Variant	rs9877738
Chromosome Location	chr3:143387945-143387946
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1242047	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1242048	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1242051	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1242052	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1242053	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1242055	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1242059	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1242060	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1242062	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1242063	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1242069	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1242071	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1242072	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1242078	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1242080	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1268369	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1270765	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1447736	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1447737	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1447739	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1868176	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6782176	1.00[CEU][hapmap]
rs73152842	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73152843	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73152844	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73152845	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7648523	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7653163	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs935518	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv829745	chr3:143278512-143405626	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 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	chr3:143367400-143390400	Weak transcription	Brain Substantia Nigra	brain
2	chr3:143370400-143390400	Weak transcription	Fetal Lung	lung
3	chr3:143370800-143420800	Weak transcription	Primary T cells from cord blood	blood
4	chr3:143386600-143389600	Enhancers	Primary B cells from peripheral blood	blood
5	chr3:143387200-143389400	Enhancers	Primary B cells from cord blood	blood
6	chr3:143387400-143388000	Enhancers	Duodenum Mucosa	Duodenum
7	chr3:143387400-143388200	Enhancers	Fetal Stomach	stomach
8	chr3:143387400-143388800	Flanking Active TSS	GM12878-XiMat	blood
9	chr3:143387400-143389400	Enhancers	Dnd41	blood
10	chr3:143387400-143390000	Enhancers	Thymus	Thymus
11	chr3:143387400-143390800	Enhancers	Fetal Thymus	thymus
12	chr3:143387600-143388000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr3:143387600-143393000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr3:143387800-143388400	Enhancers	Fetal Muscle Leg	muscle
15	chr3:143387800-143388600	Enhancers	HSMM	muscle

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