Variant report

Variant	rs12275828
Chromosome Location	chr11:9388123-9388124
allele	A/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:9384832..9388447-chr11:9401739..9404383,5	MCF-7	breast:
2	chr11:9385882..9388883-chr11:9391804..9395643,5	K562	blood:
3	chr11:9331410..9339611-chr11:9380876..9388176,24	K562	blood:
4	chr11:9382569..9389533-chr11:9404674..9410600,16	MCF-7	breast:
5	chr11:9381627..9391078-chr11:9403280..9408916,26	K562	blood:
6	chr11:9324025..9326025-chr11:9386165..9388976,2	K562	blood:
7	chr11:9384654..9388171-chr11:9393379..9396078,3	MCF-7	breast:
8	chr11:9384745..9387627-chr11:9387975..9389794,3	K562	blood:
9	chr11:9381937..9391078-chr11:9402547..9409222,25	K562	blood:
10	chr11:9387912..9390461-chr11:9419141..9421304,2	K562	blood:
11	chr11:9387928..9389477-chr11:9396814..9399439,3	K562	blood:

No data

No data

No data

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10128708	0.83[AMR][1000 genomes]
rs11042308	0.91[AMR][1000 genomes]
rs11042310	0.91[AMR][1000 genomes]
rs11042318	0.98[EUR][1000 genomes]
rs11042323	0.92[AMR][1000 genomes]
rs11042324	0.83[AMR][1000 genomes]
rs11042325	0.83[AMR][1000 genomes]
rs11042346	0.83[AMR][1000 genomes]
rs11042361	0.83[AMR][1000 genomes]
rs11601068	0.83[AMR][1000 genomes]
rs12272069	0.83[AMR][1000 genomes]
rs12276413	0.83[AMR][1000 genomes]
rs12279202	0.83[AMR][1000 genomes]
rs12282862	0.83[AMR][1000 genomes]
rs12286949	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12291406	0.91[AMR][1000 genomes]
rs12294461	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs16906804	0.83[AMR][1000 genomes]
rs28463550	0.83[AMR][1000 genomes]
rs34485398	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36048375	0.83[AMR][1000 genomes]
rs4910052	0.83[AMR][1000 genomes]
rs4910463	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55750964	0.83[AMR][1000 genomes]
rs9971482	0.91[AMR][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	nsv916534	chr11:9188436-9516241	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv1055078	chr11:9252857-9538877	Strong transcription Active TSS Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	89 gene(s)	inside rSNPs	diseases
3	nsv508617	chr11:9314027-9408562	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	27 gene(s)	inside rSNPs	diseases
4	nsv975322	chr11:9363750-9395226	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	Chromatin interactive region	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12275828	ZNF143	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9386600-9388800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr11:9386600-9389000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr11:9386600-9389000	Weak transcription	Fetal Heart	heart
4	chr11:9386600-9389200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr11:9386800-9388600	Weak transcription	K562	blood
6	chr11:9386800-9388800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr11:9386800-9388800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr11:9386800-9388800	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr11:9386800-9389200	Weak transcription	A549	lung
10	chr11:9386800-9391200	Weak transcription	Fetal Brain Male	brain
11	chr11:9386800-9394200	Weak transcription	HepG2	liver
12	chr11:9386800-9406000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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