Variant report

Variant	rs1399710
Chromosome Location	chr3:134599532-134599533
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11706968	0.84[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs12695618	0.96[CEU][hapmap];0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13079457	0.84[YRI][hapmap]
rs1399706	0.81[JPT][hapmap]
rs1399707	0.86[JPT][hapmap]
rs1515359	0.86[JPT][hapmap]
rs1515366	0.81[JPT][hapmap];0.86[YRI][hapmap]
rs1515367	0.93[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs4955458	0.96[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4955510	0.80[JPT][hapmap]
rs6439529	0.82[JPT][hapmap]
rs6762621	0.96[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6789763	0.93[JPT][hapmap]
rs6793377	0.81[JPT][hapmap]
rs9846488	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9868348	0.96[CEU][hapmap];0.92[CHB][hapmap];0.93[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9874291	0.91[JPT][hapmap]
rs9874607	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[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:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:134589000-134602600	Weak transcription	Psoas Muscle	Psoas
2	chr3:134594400-134604600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr3:134595800-134602600	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr3:134597000-134602600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr3:134597000-134602600	Weak transcription	Fetal Brain Male	brain
6	chr3:134597600-134600000	Enhancers	Brain Hippocampus Middle	brain
7	chr3:134597800-134600200	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr3:134597800-134600400	Enhancers	Fetal Muscle Leg	muscle
9	chr3:134598000-134602800	Weak transcription	GM12878-XiMat	blood
10	chr3:134598600-134599600	Enhancers	Brain Angular Gyrus	brain
11	chr3:134598600-134600200	Enhancers	Brain Inferior Temporal Lobe	brain
12	chr3:134598800-134599600	Enhancers	Brain Substantia Nigra	brain
13	chr3:134598800-134600200	Enhancers	Brain Anterior Caudate	brain
14	chr3:134598800-134600200	Enhancers	Brain Cingulate Gyrus	brain
15	chr3:134598800-134600200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
16	chr3:134599400-134599600	Enhancers	Fetal Muscle Trunk	muscle

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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