Variant report

Variant	rs13416852
Chromosome Location	chr2:55286233-55286234
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	chr2:55276015..55279401-chr2:55283233..55288147,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115310	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10084445	0.81[EUR][1000 genomes]
rs10170102	0.82[EUR][1000 genomes]
rs10175952	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10181115	0.82[EUR][1000 genomes]
rs10182203	0.84[EUR][1000 genomes]
rs10191774	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10197533	0.83[GIH][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.86[EUR][1000 genomes]
rs10197591	1.00[CEU][hapmap]
rs10198096	0.81[EUR][1000 genomes]
rs10206953	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10207701	0.81[AMR][1000 genomes]
rs11125554	0.84[EUR][1000 genomes]
rs13387710	0.81[AMR][1000 genomes]
rs13400353	0.96[GIH][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.88[EUR][1000 genomes]
rs13401780	1.00[CEU][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17046567	0.81[EUR][1000 genomes]
rs17046569	0.87[GIH][hapmap];0.82[MEX][hapmap];0.83[TSI][hapmap];0.81[EUR][1000 genomes]
rs4358163	0.82[GIH][hapmap];0.82[MEX][hapmap];0.82[TSI][hapmap]
rs60989108	0.81[EUR][1000 genomes]
rs6545469	1.00[CEU][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6545470	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6715980	0.87[GIH][hapmap];0.82[MEX][hapmap];0.85[TSI][hapmap]
rs6744637	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6758258	1.00[CEU][hapmap];0.96[GIH][hapmap];0.82[MEX][hapmap]
rs6760773	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72912579	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7584992	1.00[MEX][hapmap]
rs7592869	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7607464	0.80[AFR][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	nsv874155	chr2:55205262-55307646	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:55278200-55288800	Weak transcription	Lung	lung
2	chr2:55278800-55288600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr2:55278800-55290800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr2:55279000-55287000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr2:55279000-55290600	Weak transcription	Brain Cingulate Gyrus	brain
6	chr2:55279400-55287600	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr2:55279800-55287400	Weak transcription	HSMM	muscle
8	chr2:55280000-55289000	Weak transcription	HepG2	liver
9	chr2:55280200-55287200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr2:55280200-55288200	Weak transcription	Primary monocytes fromperipheralblood	blood
11	chr2:55281800-55287600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr2:55283600-55287600	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr2:55283800-55286600	Weak transcription	K562	blood
14	chr2:55284800-55287200	Weak transcription	Fetal Heart	heart

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