Variant report

Variant	rs2484879
Chromosome Location	chr10:98888649-98888650
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1336259	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1490689	0.82[EUR][1000 genomes]
rs2636774	0.84[JPT][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2636776	0.82[CEU][hapmap];0.82[EUR][1000 genomes]
rs2636784	0.82[CEU][hapmap];0.91[CHB][hapmap];0.84[JPT][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2636786	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2636787	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2636813	0.86[CEU][hapmap];0.91[CHB][hapmap];0.84[JPT][hapmap];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2636817	0.85[CEU][hapmap];0.91[CHB][hapmap];0.84[JPT][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2784938	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2817647	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2817694	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs2817701	0.82[CEU][hapmap];0.91[CHB][hapmap];0.84[JPT][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2817703	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2817704	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2817705	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2817707	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2817709	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2817710	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2817711	0.84[JPT][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2817713	0.84[JPT][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3000213	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs902469	0.84[JPT][hapmap]
rs902473	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs902474	0.85[CEU][hapmap];0.91[CHB][hapmap];0.84[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs902475	0.83[EUR][1000 genomes]
rs931451	0.83[CEU][hapmap];0.82[EUR][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	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	esv2758236	chr10:98789963-98962472	Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv2759777	chr10:98789963-98962472	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98873600-98890000	Strong transcription	Fetal Thymus	thymus
2	chr10:98880200-98912800	Weak transcription	Thymus	Thymus
3	chr10:98880400-98891600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr10:98882400-98889400	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr10:98887000-98888800	Genic enhancers	Fetal Brain Female	brain
6	chr10:98887200-98891400	Enhancers	Brain Angular Gyrus	brain
7	chr10:98887200-98892800	Enhancers	Brain Germinal Matrix	brain
8	chr10:98887200-98895000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr10:98887400-98889600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr10:98887400-98892200	Enhancers	Fetal Brain Male	brain
11	chr10:98887400-98894200	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr10:98887600-98888800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr10:98887600-98889400	Weak transcription	Right Ventricle	heart
14	chr10:98887600-98889800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr10:98887800-98889000	Enhancers	Brain Hippocampus Middle	brain
16	chr10:98887800-98889800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
17	chr10:98888000-98888800	Enhancers	Brain Substantia Nigra	brain
18	chr10:98888000-98889000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr10:98888400-98889000	Weak transcription	Brain Cingulate Gyrus	brain
20	chr10:98888400-98890800	Weak transcription	Lung	lung
21	chr10:98888600-98890000	Weak transcription	Brain Anterior Caudate	brain
22	chr10:98888600-98890800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr10:98888600-98892600	Enhancers	Fetal Lung	lung
24	chr10:98888600-98893800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links