Variant report

Variant	rs17112464
Chromosome Location	chr10:98912928-98912929
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:98895047..98897356-chr10:98912806..98914743,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FRAT2-3	chr10:98912802-98915190	NONHSAT015848

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11189012	1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs11189013	0.93[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs11189014	1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs11189016	1.00[CEU][hapmap];0.91[GIH][hapmap];0.80[LWK][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.80[AFR][1000 genomes]
rs2784924	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs3814163	1.00[CEU][hapmap]
rs4146592	1.00[CEU][hapmap]
rs57209536	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7082522	1.00[CEU][hapmap]
rs7098255	1.00[CEU][hapmap]
rs73324815	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs73324817	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73324819	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73324820	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73324821	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73324824	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	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
4	nsv7506	chr10:98902440-98940209	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98901000-98923200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr10:98901400-98918400	Weak transcription	Brain Angular Gyrus	brain
3	chr10:98904600-98917400	Weak transcription	Brain Anterior Caudate	brain
4	chr10:98904600-98922800	Weak transcription	Fetal Brain Male	brain
5	chr10:98907800-98922800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr10:98908600-98913400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr10:98909200-98914800	Strong transcription	Fetal Thymus	thymus
8	chr10:98909400-98915000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr10:98909800-98913400	Enhancers	HepG2	liver
10	chr10:98910000-98913800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr10:98910400-98917800	Strong transcription	Brain Germinal Matrix	brain
12	chr10:98910600-98917200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr10:98910600-98923400	Weak transcription	Fetal Lung	lung
14	chr10:98911000-98923200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr10:98911200-98913000	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr10:98911200-98917400	Strong transcription	Fetal Brain Female	brain
17	chr10:98912200-98917800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr10:98912400-98915000	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr10:98912400-98917200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr10:98912400-98917400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr10:98912800-98916000	Strong transcription	Thymus	Thymus

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