Variant report

Variant	rs12635866
Chromosome Location	chr3:88667185-88667186
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10511138	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12487560	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12487623	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12488396	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12489078	0.89[EUR][1000 genomes]
rs12490357	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12491633	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12494001	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12630722	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12633026	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12637931	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12639499	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13073581	1.00[CEU][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13321865	0.88[EUR][1000 genomes]
rs17559821	1.00[CEU][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17560386	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1979751	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2132362	0.88[EUR][1000 genomes]
rs28447483	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs28784899	0.83[AMR][1000 genomes]
rs4429640	1.00[YRI][hapmap]
rs56076642	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56302725	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs56359806	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs58379062	0.87[EUR][1000 genomes]
rs59752267	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs59757044	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs60418303	0.81[AMR][1000 genomes]
rs60574566	0.80[EUR][1000 genomes]
rs61176217	0.80[EUR][1000 genomes]
rs67260046	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67616120	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6776183	0.90[EUR][1000 genomes]
rs6777020	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6802531	0.88[EUR][1000 genomes]
rs73134314	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73134400	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73136414	0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs73136419	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73150566	0.91[EUR][1000 genomes]
rs73150570	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73150583	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73152336	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7430981	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7431312	0.86[EUR][1000 genomes]
rs7431370	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7432988	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7433029	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7637716	0.90[EUR][1000 genomes]
rs7652836	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9824652	0.88[EUR][1000 genomes]
rs9856843	0.87[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	nsv916330	chr3:88083580-88884125	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1014703	chr3:88623532-88733631	Enhancers Weak transcription ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:88664600-88667800	Enhancers	Fetal Brain Female	brain
2	chr3:88665400-88667600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr3:88666000-88669000	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr3:88666200-88667400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr3:88666600-88668000	Enhancers	Brain Germinal Matrix	brain
6	chr3:88666800-88667800	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr3:88666800-88667800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr3:88667000-88667600	Enhancers	Fetal Brain Male	brain

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