Variant report

Variant	rs1515364
Chromosome Location	chr3:134611198-134611199
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10935140	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11706968	0.86[JPT][hapmap]
rs12489360	0.82[JPT][hapmap]
rs13068347	0.87[JPT][hapmap]
rs13078595	0.81[JPT][hapmap]
rs13078906	0.82[JPT][hapmap]
rs1399706	0.83[JPT][hapmap]
rs1515359	1.00[CEU][hapmap];0.93[CHB][hapmap];0.81[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1515366	0.83[JPT][hapmap]
rs2895696	0.88[JPT][hapmap]
rs4955458	0.86[JPT][hapmap];0.85[YRI][hapmap];0.86[AFR][1000 genomes]
rs4955508	0.88[JPT][hapmap]
rs4955510	0.82[JPT][hapmap]
rs4955511	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6439530	0.87[JPT][hapmap]
rs6439535	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6762621	0.87[JPT][hapmap];0.85[YRI][hapmap];0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6779978	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6786490	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6793377	0.82[JPT][hapmap]
rs7639520	0.87[JPT][hapmap]
rs7639843	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7643782	0.82[JPT][hapmap]
rs7645886	0.82[JPT][hapmap]
rs868130	0.88[JPT][hapmap]
rs884381	0.88[JPT][hapmap]
rs885594	0.81[JPT][hapmap]
rs938382	0.88[JPT][hapmap]
rs9814692	0.81[JPT][hapmap]
rs9819889	0.88[JPT][hapmap]
rs9825687	0.83[JPT][hapmap]
rs9839573	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9846488	0.86[AFR][1000 genomes]
rs9851596	0.88[JPT][hapmap]
rs9868348	0.80[JPT][hapmap];0.83[YRI][hapmap];0.84[AFR][1000 genomes]
rs9874291	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[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:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:134599800-134613400	Weak transcription	Fetal Brain Female	brain
2	chr3:134609200-134611400	Weak transcription	Brain Germinal Matrix	brain
3	chr3:134610800-134612200	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
4	chr3:134610800-134612400	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
5	chr3:134610800-134617400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr3:134611000-134611200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:134611000-134611200	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
8	chr3:134611000-134611200	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr3:134611000-134612000	Bivalent Enhancer	H9 Cell Line	embryonic stem cell
10	chr3:134611000-134612000	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
11	chr3:134611000-134612600	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
12	chr3:134611000-134612600	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
13	chr3:134611000-134612800	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
14	chr3:134611000-134613400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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