Variant report

Variant	rs10403859
Chromosome Location	chr19:19342911-19342912
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:19317527..19320525-chr19:19340607..19343524,2	K562	blood:
2	chr19:19335752..19337834-chr19:19340536..19343363,2	K562	blood:
3	chr19:19341601..19343468-chr19:19345129..19347319,3	K562	blood:

Variant related genes	Relation type
ENSG00000130287	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10406659	1.00[CEU][hapmap];0.88[GIH][hapmap];0.82[MEX][hapmap];0.87[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10411761	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10418279	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10424369	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11667950	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11668677	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11668734	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11671506	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs11671527	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11672216	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13345554	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17683766	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs17751021	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs2228600	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2238672	0.81[YRI][hapmap]
rs2238674	0.96[EUR][1000 genomes]
rs2283627	0.88[EUR][1000 genomes]
rs28393849	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28409009	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28446016	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28508263	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28510494	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28541794	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28628330	0.83[AMR][1000 genomes]
rs28838696	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34673002	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35583425	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3761080	0.88[EUR][1000 genomes]
rs4563151	0.83[ASW][hapmap];0.81[YRI][hapmap]
rs73922843	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv911303	chr19:19256870-19505087	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv911304	chr19:19303802-19408164	Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Weak transcription Genic enhancers Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv911305	chr19:19303802-19663850	Genic enhancers Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:19325200-19344600	Weak transcription	Brain Angular Gyrus	brain
2	chr19:19326400-19344200	Strong transcription	Brain Germinal Matrix	brain
3	chr19:19326800-19344200	Strong transcription	Cortex derived primary cultured neurospheres	brain
4	chr19:19328400-19344400	Strong transcription	Fetal Brain Female	brain
5	chr19:19330400-19344600	Weak transcription	Brain Anterior Caudate	brain
6	chr19:19335200-19344000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr19:19339000-19344600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr19:19339600-19344200	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr19:19342200-19343200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr19:19342400-19343400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr19:19342400-19344400	Enhancers	Fetal Muscle Leg	muscle
12	chr19:19342600-19344000	Enhancers	Fetal Muscle Trunk	muscle
13	chr19:19342600-19344600	Weak transcription	Brain Cingulate Gyrus	brain
14	chr19:19342800-19343400	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr19:19342800-19343400	Enhancers	Fetal Brain Male	brain

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