Variant report

Variant	rs12245237
Chromosome Location	chr10:26227401-26227402
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr10:26227360-26227510	AG09309	skin:	n/a	n/a

Variant related genes	Relation type
ENSG00000226304	TF binding region

Extended variants
information (count: 129 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:127)

rs_ID	r²[population]
rs10128298	0.82[CEU][hapmap];0.94[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10828904	1.00[ASN][1000 genomes]
rs10828905	1.00[ASN][1000 genomes]
rs11014734	1.00[ASN][1000 genomes]
rs11014799	1.00[ASN][1000 genomes]
rs11014865	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11014867	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11014873	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11014875	0.89[YRI][hapmap]
rs11812332	1.00[CHB][hapmap]
rs11812752	1.00[ASN][1000 genomes]
rs11812817	1.00[CHB][hapmap]
rs11812818	1.00[CHB][hapmap]
rs11813250	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11816237	1.00[CHB][hapmap]
rs11818246	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11818641	1.00[ASN][1000 genomes]
rs12243371	0.94[YRI][hapmap];0.80[AFR][1000 genomes]
rs12244769	1.00[CEU][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12246082	0.94[YRI][hapmap];0.82[AFR][1000 genomes]
rs12250378	0.89[YRI][hapmap]
rs12259899	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12264665	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12265873	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1316407	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1339802	0.82[YRI][hapmap]
rs1521037	1.00[CHB][hapmap]
rs16926494	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16926502	0.89[YRI][hapmap]
rs17528260	1.00[ASN][1000 genomes]
rs17666634	1.00[ASN][1000 genomes]
rs17738073	1.00[ASN][1000 genomes]
rs17738672	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2437382	1.00[ASN][1000 genomes]
rs2437383	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs2437385	1.00[ASN][1000 genomes]
rs2437387	1.00[ASN][1000 genomes]
rs2437393	1.00[ASN][1000 genomes]
rs2437398	1.00[ASN][1000 genomes]
rs2437406	1.00[ASN][1000 genomes]
rs2437407	1.00[ASN][1000 genomes]
rs2437411	1.00[ASN][1000 genomes]
rs2437412	1.00[ASN][1000 genomes]
rs2437417	1.00[ASN][1000 genomes]
rs2437418	1.00[ASN][1000 genomes]
rs2437423	1.00[ASN][1000 genomes]
rs2442830	1.00[ASN][1000 genomes]
rs2442834	1.00[ASN][1000 genomes]
rs2442835	1.00[ASN][1000 genomes]
rs2442836	1.00[ASN][1000 genomes]
rs2442837	1.00[ASN][1000 genomes]
rs2442841	1.00[ASN][1000 genomes]
rs2442844	1.00[ASN][1000 genomes]
rs2442845	1.00[ASN][1000 genomes]
rs2442846	1.00[ASN][1000 genomes]
rs2442848	1.00[ASN][1000 genomes]
rs2505419	1.00[ASN][1000 genomes]
rs2505428	1.00[ASN][1000 genomes]
rs2505429	1.00[CHB][hapmap]
rs2505432	1.00[ASN][1000 genomes]
rs2505435	1.00[ASN][1000 genomes]
rs2505436	1.00[ASN][1000 genomes]
rs2505437	1.00[ASN][1000 genomes]
rs2505442	1.00[ASN][1000 genomes]
rs2505472	1.00[ASN][1000 genomes]
rs2505473	1.00[ASN][1000 genomes]
rs2505474	1.00[ASN][1000 genomes]
rs2505476	1.00[ASN][1000 genomes]
rs2505479	1.00[ASN][1000 genomes]
rs2505480	1.00[ASN][1000 genomes]
rs2505481	1.00[ASN][1000 genomes]
rs2505482	1.00[ASN][1000 genomes]
rs2505483	1.00[ASN][1000 genomes]
rs2505489	1.00[ASN][1000 genomes]
rs2505491	1.00[ASN][1000 genomes]
rs2505496	1.00[ASN][1000 genomes]
rs2505497	1.00[ASN][1000 genomes]
rs2505499	1.00[ASN][1000 genomes]
rs3006247	1.00[ASN][1000 genomes]
rs3006261	1.00[ASN][1000 genomes]
rs3006267	1.00[ASN][1000 genomes]
rs4370835	1.00[CHB][hapmap]
rs56091425	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56384418	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6482521	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6482522	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66470511	1.00[ASN][1000 genomes]
rs7070437	1.00[CHB][hapmap]
rs7073084	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7073224	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7074259	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7084069	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7093785	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7095361	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7095669	1.00[ASN][1000 genomes]
rs7096963	1.00[ASN][1000 genomes]
rs72789911	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72789916	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72789918	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72789921	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72789927	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72789932	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72789935	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72789936	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72789937	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72789941	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72789943	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72797835	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72797838	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72797849	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72797851	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72797853	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72797855	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7476089	1.00[CHB][hapmap]
rs7900700	0.89[AFR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7906568	1.00[ASN][1000 genomes]
rs7906569	1.00[ASN][1000 genomes]
rs7914207	0.89[YRI][hapmap]
rs7917417	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs872752	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs872753	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs872754	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9299809	1.00[ASN][1000 genomes]
rs9299810	1.00[ASN][1000 genomes]
rs9417455	1.00[ASN][1000 genomes]
rs946688	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9731088	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv894974	chr10:26028530-26322783	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1051756	chr10:26092320-26277478	Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:26222400-26228000	Active TSS	Pancreatic Islets	Pancreatic Islet
2	chr10:26226200-26227800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr10:26227000-26227600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr10:26227400-26230200	Weak transcription	Brain Germinal Matrix	brain

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