Variant report

Variant	rs6479839
Chromosome Location	chr10:52756824-52756825
allele	C/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]
rs10128514	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1015288	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10761651	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10761657	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10822020	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10822032	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10822040	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10822045	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10822095	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10822101	0.84[EUR][1000 genomes]
rs10995206	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10995339	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2879549	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35756803	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4041333	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6479833	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6479834	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6479835	1.00[CEU][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6479836	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7070037	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7070266	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7076050	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7091997	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7093621	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7099130	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7100141	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7900993	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7905728	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7916612	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][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	nsv831872	chr10:52663328-52818537	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv831873	chr10:52710610-52899540	Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 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	chr10:52753600-52757800	Weak transcription	Psoas Muscle	Psoas
2	chr10:52753800-52757000	Weak transcription	Fetal Heart	heart
3	chr10:52753800-52757800	Weak transcription	Right Atrium	heart
4	chr10:52753800-52765400	Weak transcription	Left Ventricle	heart
5	chr10:52754000-52758800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr10:52754000-52759600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr10:52754200-52760600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr10:52754400-52757400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr10:52754400-52760600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr10:52755600-52758000	Enhancers	NHLF	lung
11	chr10:52756200-52759000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr10:52756400-52757000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr10:52756400-52757600	Flanking Active TSS	Fetal Lung	lung
14	chr10:52756400-52758400	Enhancers	NHDF-Ad	bronchial
15	chr10:52756800-52757400	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr10:52756800-52758000	Active TSS	Aorta	Aorta
17	chr10:52756800-52765200	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr10:52756800-52794800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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