Variant report

Variant	rs12885089
Chromosome Location	chr14:81146394-81146395
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10129919	0.87[CHB][hapmap]
rs10498551	0.86[CHB][hapmap]
rs10498552	0.96[CHB][hapmap]
rs11159475	0.87[CHB][hapmap]
rs1117435	0.82[ASN][1000 genomes]
rs12587367	0.91[CHB][hapmap]
rs12587844	0.83[CHB][hapmap]
rs12588075	0.95[CHB][hapmap]
rs12588311	0.82[CEU][hapmap];0.92[CHB][hapmap];0.89[AMR][1000 genomes]
rs12588325	0.96[AMR][1000 genomes]
rs12588374	0.82[CEU][hapmap];0.92[CHB][hapmap];0.98[AMR][1000 genomes]
rs12589266	0.95[CHB][hapmap]
rs12589935	0.87[CHB][hapmap]
rs12590477	0.86[CHB][hapmap]
rs12590579	0.87[CHB][hapmap]
rs12880008	0.87[CHB][hapmap]
rs12882027	0.95[CHB][hapmap]
rs12884630	0.82[CHB][hapmap]
rs12892149	0.87[CHB][hapmap]
rs12892368	0.95[CHB][hapmap]
rs12896053	0.82[CEU][hapmap];0.95[CHB][hapmap];0.98[AMR][1000 genomes]
rs1458992	0.87[CHB][hapmap]
rs1470639	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17111032	0.93[AMR][1000 genomes]
rs17111034	0.81[CEU][hapmap];0.95[CHB][hapmap];0.93[AMR][1000 genomes]
rs17111035	0.81[CEU][hapmap];0.95[CHB][hapmap];0.93[AMR][1000 genomes]
rs17111078	0.91[CHB][hapmap]
rs17111143	0.87[CHB][hapmap]
rs17111149	0.95[CHB][hapmap]
rs17111151	0.87[CHB][hapmap]
rs17111165	0.96[CHB][hapmap]
rs17111167	0.88[CHB][hapmap]
rs2167061	0.81[ASN][1000 genomes]
rs2371332	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2371414	0.91[CHB][hapmap]
rs2371417	0.95[CHB][hapmap]
rs2840052	0.87[CHB][hapmap]
rs35114098	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35731915	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3861639	0.95[CHB][hapmap]
rs61979418	0.89[AMR][1000 genomes]
rs67921287	0.98[AMR][1000 genomes]
rs72690934	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs72690937	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs72690945	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs8006100	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869348	chr14:80921098-81535754	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv565290	chr14:81085129-81230117	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1039554	chr14:81113167-81156335	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a
4	nsv1051964	chr14:81113167-81156847	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:81132600-81148400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr14:81144200-81150200	ZNF genes & repeats	Dnd41	blood
3	chr14:81144600-81148800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr14:81145200-81147800	Weak transcription	NHDF-Ad	bronchial
5	chr14:81145600-81146800	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr14:81145800-81146400	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr14:81145800-81147400	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr14:81145800-81148400	ZNF genes & repeats	Fetal Thymus	thymus
9	chr14:81146000-81147200	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr14:81146200-81147000	ZNF genes & repeats	Liver	Liver
11	chr14:81146200-81147200	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr14:81146200-81147200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr14:81146200-81147400	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr14:81146200-81149600	ZNF genes & repeats	Thymus	Thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links