Variant report

Variant	rs13099753
Chromosome Location	chr3:100769324-100769325
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1036467	0.88[CEU][hapmap]
rs10511181	0.88[CEU][hapmap]
rs13060137	0.88[CEU][hapmap]
rs13060756	0.85[ASN][1000 genomes]
rs13077353	0.87[CEU][hapmap]
rs13084328	1.00[ASN][1000 genomes]
rs13084743	0.97[ASN][1000 genomes]
rs13087527	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13088524	0.88[CEU][hapmap]
rs13094362	0.85[ASN][1000 genomes]
rs1375513	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1584480	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1584481	0.97[ASN][1000 genomes]
rs16843187	0.97[ASN][1000 genomes]
rs17284842	0.88[CEU][hapmap]
rs17398421	0.87[CEU][hapmap]
rs17398684	0.88[CEU][hapmap]
rs1823360	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1900909	0.97[ASN][1000 genomes]
rs2053861	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2576377	0.82[CEU][hapmap]
rs2576382	0.88[CEU][hapmap]
rs2576391	0.88[CEU][hapmap]
rs2595893	0.87[CEU][hapmap]
rs2595894	0.87[CEU][hapmap]
rs2713786	0.87[CEU][hapmap]
rs34109547	0.95[ASN][1000 genomes]
rs4928107	0.89[ASN][1000 genomes]
rs6441563	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs71315219	0.84[ASN][1000 genomes]
rs71315220	0.85[ASN][1000 genomes]
rs71315221	0.89[ASN][1000 genomes]
rs7431835	0.88[CEU][hapmap]
rs969628	1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931417	chr3:100547347-101183844	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	esv2757881	chr3:100613387-100776497	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	esv2759163	chr3:100613387-100776497	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv877222	chr3:100715576-101038297	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv591176	chr3:100763611-100799644	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv591177	chr3:100767398-100799644	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100762600-100780200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:100768800-100769400	Enhancers	HSMM	muscle
3	chr3:100768800-100770000	Enhancers	Fetal Muscle Leg	muscle
4	chr3:100768800-100770400	Enhancers	Muscle Satellite Cultured Cells	--
5	chr3:100768800-100770600	Enhancers	HSMMtube	muscle
6	chr3:100769000-100769400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:100769000-100769400	Enhancers	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links