Variant report

Variant	rs12876786
Chromosome Location	chr13:53740347-53740348
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 102 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs10507575	1.00[CEU][hapmap];0.95[JPT][hapmap];0.89[EUR][1000 genomes]
rs12860364	1.00[CEU][hapmap];0.95[JPT][hapmap];0.86[EUR][1000 genomes]
rs12865218	0.94[EUR][1000 genomes]
rs12867491	0.97[EUR][1000 genomes]
rs12868253	0.88[EUR][1000 genomes]
rs12869523	0.97[EUR][1000 genomes]
rs12870777	0.97[EUR][1000 genomes]
rs12871248	0.97[EUR][1000 genomes]
rs12874939	0.97[EUR][1000 genomes]
rs12876105	0.97[EUR][1000 genomes]
rs12876387	0.94[EUR][1000 genomes]
rs12877178	0.94[EUR][1000 genomes]
rs12877599	0.97[EUR][1000 genomes]
rs12877758	0.97[EUR][1000 genomes]
rs12877912	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1343608	0.97[EUR][1000 genomes]
rs17054812	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17054937	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1909651	0.89[EUR][1000 genomes]
rs2799344	0.82[EUR][1000 genomes]
rs2799345	0.82[EUR][1000 genomes]
rs2806932	0.99[ASN][1000 genomes]
rs2806957	1.00[CEU][hapmap];0.82[JPT][hapmap];0.89[EUR][1000 genomes]
rs34030659	0.97[EUR][1000 genomes]
rs34031649	0.97[EUR][1000 genomes]
rs34059997	0.97[EUR][1000 genomes]
rs34163916	0.94[EUR][1000 genomes]
rs34201111	0.97[EUR][1000 genomes]
rs34211399	0.94[EUR][1000 genomes]
rs34298498	0.94[EUR][1000 genomes]
rs34330988	0.94[EUR][1000 genomes]
rs34531708	0.97[EUR][1000 genomes]
rs34557321	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34610752	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34642277	0.94[EUR][1000 genomes]
rs34687272	0.97[EUR][1000 genomes]
rs34708622	0.94[EUR][1000 genomes]
rs34756826	0.94[EUR][1000 genomes]
rs34820311	0.83[EUR][1000 genomes]
rs34902019	0.97[EUR][1000 genomes]
rs35003538	0.94[EUR][1000 genomes]
rs35007240	0.94[EUR][1000 genomes]
rs35114755	0.97[EUR][1000 genomes]
rs35226075	0.94[EUR][1000 genomes]
rs35340650	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35575822	0.94[EUR][1000 genomes]
rs35625606	0.94[EUR][1000 genomes]
rs35628629	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35666947	0.94[EUR][1000 genomes]
rs35727089	0.94[EUR][1000 genomes]
rs35756659	0.94[EUR][1000 genomes]
rs35765587	0.94[EUR][1000 genomes]
rs35800707	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs36044845	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55702516	0.80[EUR][1000 genomes]
rs55972529	0.97[EUR][1000 genomes]
rs57273256	0.97[EUR][1000 genomes]
rs57454139	0.94[EUR][1000 genomes]
rs59155861	0.86[EUR][1000 genomes]
rs59297590	0.97[EUR][1000 genomes]
rs59486247	0.83[EUR][1000 genomes]
rs59513810	0.94[EUR][1000 genomes]
rs59960345	0.97[EUR][1000 genomes]
rs60408242	0.97[EUR][1000 genomes]
rs61950074	0.94[EUR][1000 genomes]
rs61950078	0.83[EUR][1000 genomes]
rs61950079	0.97[EUR][1000 genomes]
rs61950086	0.97[EUR][1000 genomes]
rs61950134	0.80[EUR][1000 genomes]
rs61950504	0.94[EUR][1000 genomes]
rs61950522	0.94[EUR][1000 genomes]
rs6561705	0.92[EUR][1000 genomes]
rs6561706	0.97[EUR][1000 genomes]
rs6561707	0.97[EUR][1000 genomes]
rs71437891	0.83[ASN][1000 genomes]
rs7320513	0.97[EUR][1000 genomes]
rs7325509	0.94[EUR][1000 genomes]
rs74086489	0.94[EUR][1000 genomes]
rs7998204	0.97[EUR][1000 genomes]
rs7998385	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs912053	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9563134	0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9563136	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9563137	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9563138	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9563145	0.82[CEU][hapmap];0.80[EUR][1000 genomes]
rs9563147	0.80[EUR][1000 genomes]
rs9568814	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568815	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568816	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568817	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568820	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568821	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568822	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568823	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568824	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568825	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568827	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9568828	1.00[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap]
rs9568834	0.80[EUR][1000 genomes]
rs995821	0.89[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1050969	chr13:53665927-54064861	Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 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	chr13:53731400-53741800	Weak transcription	Fetal Brain Male	brain
2	chr13:53735000-53741800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr13:53738400-53740600	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr13:53739000-53740400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr13:53739200-53740400	Enhancers	H1 Cell Line	embryonic stem cell
6	chr13:53739600-53740400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr13:53739800-53740400	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr13:53739800-53740400	Enhancers	Brain Germinal Matrix	brain
9	chr13:53739800-53741000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr13:53739800-53741000	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr13:53739800-53743800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr13:53740000-53740400	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
13	chr13:53740000-53741000	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr13:53740000-53741800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr13:53740000-53741800	Weak transcription	Cortex derived primary cultured neurospheres	brain

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