Variant report

Variant	rs35666826
Chromosome Location	chr12:56471334-56471335
allele	C/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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr12:56471198..56482935-chr12:56506922..56516262,73	MCF-7	breast:
2	chr12:56471261..56483436-chr12:56494778..56506435,58	MCF-7	breast:
3	chr12:56471332..56475358-chr12:56550630..56554454,5	MCF-7	breast:
4	chr12:56435072..56437678-chr12:56471264..56476125,12	MCF-7	breast:
5	chr12:56467571..56470016-chr12:56470633..56472674,2	K562	blood:
6	chr12:56470948..56480058-chr12:56507665..56513741,17	K562	blood:
7	chr12:56434525..56442579-chr12:56469196..56475242,12	K562	blood:
8	chr12:56471291..56475668-chr12:56497220..56500908,8	K562	blood:

No data

Variant related genes	Relation type
ENSG00000139641	Chromatin interaction
ENSG00000258345	Chromatin interaction
ENSG00000170515	Chromatin interaction
ENSG00000092841	Chromatin interaction
ENSG00000257411	Chromatin interaction
ENSG00000257449	Chromatin interaction
ENSG00000229117	Chromatin interaction
ENSG00000196465	Chromatin interaction
ENSG00000257553	Chromatin interaction
ENSG00000135482	Chromatin interaction
ENSG00000257809	Chromatin interaction
ENSG00000197728	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs12099979	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12810011	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12815302	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs12815387	0.81[EUR][1000 genomes]
rs12815488	0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs12817471	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12818756	0.89[EUR][1000 genomes]
rs12831468	0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs1614219	0.87[EUR][1000 genomes]
rs1689511	0.84[EUR][1000 genomes]
rs17118262	0.84[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2131569	0.81[EUR][1000 genomes]
rs2229046	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2456972	0.87[EUR][1000 genomes]
rs2658479	0.83[EUR][1000 genomes]
rs34228181	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34303864	0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs34406511	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34485293	0.80[EUR][1000 genomes]
rs34602183	0.88[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs34650555	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34921584	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35485002	0.88[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs35662491	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35961650	0.83[EUR][1000 genomes]
rs36035578	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4759022	0.89[EUR][1000 genomes]
rs4759239	0.83[EUR][1000 genomes]
rs71459334	0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs71459336	0.87[EUR][1000 genomes]
rs71459339	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs71459342	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7298818	0.87[EUR][1000 genomes]
rs7300772	0.87[EUR][1000 genomes]
rs772923	0.81[EUR][1000 genomes]
rs773115	0.83[EUR][1000 genomes]
rs7963590	0.81[EUR][1000 genomes]
rs7977537	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.84[EUR][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	nsv1051961	chr12:56262220-56629427	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	284 gene(s)	inside rSNPs	diseases
2	nsv1043988	chr12:56348185-56534900	Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	189 gene(s)	inside rSNPs	diseases
3	nsv832427	chr12:56392545-56512774	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	152 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs35666826	SUOX	cis	Thyroid	GTEx
rs35666826	LOC644166///LOC644191///LOC728937///RPS26	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:56437000-56472800	Weak transcription	Right Atrium	heart
2	chr12:56466200-56472400	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr12:56466400-56471800	Weak transcription	Hela-S3	cervix
4	chr12:56466400-56472600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr12:56466600-56472600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr12:56466600-56472800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr12:56468000-56472800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr12:56468200-56472600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr12:56468600-56472600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr12:56468800-56471400	Weak transcription	HepG2	liver
11	chr12:56470400-56472600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr12:56470400-56472600	Weak transcription	NHEK	skin
13	chr12:56471000-56472400	Weak transcription	A549	lung

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