Variant report

Variant	rs10828948
Chromosome Location	chr10:26370371-26370372
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs1033308	0.82[ASN][1000 genomes]
rs10741105	0.82[EUR][1000 genomes]
rs10741106	0.89[CEU][hapmap];0.88[EUR][1000 genomes]
rs10741107	0.80[TSI][hapmap]
rs10764595	0.90[CEU][hapmap];0.95[CHB][hapmap];0.92[GIH][hapmap];0.86[JPT][hapmap];0.88[TSI][hapmap];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10764597	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.86[MKK][hapmap];0.91[TSI][hapmap];0.90[YRI][hapmap];0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10828915	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10828916	0.82[ASN][1000 genomes]
rs10828917	0.85[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs10828922	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10828927	0.86[CHB][hapmap];0.85[JPT][hapmap];0.84[ASN][1000 genomes]
rs10828928	0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs10828940	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10828942	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10828943	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10828947	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10828952	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10828960	0.86[EUR][1000 genomes]
rs11014913	0.90[CHB][hapmap];0.90[GIH][hapmap];0.88[ASN][1000 genomes]
rs11014937	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12218737	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12268184	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12413095	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12414462	0.86[AMR][1000 genomes]
rs12415729	0.86[AMR][1000 genomes]
rs12573080	0.89[CEU][hapmap];0.86[CHB][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.91[TSI][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12777444	0.82[ASN][1000 genomes]
rs12779127	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1339817	0.90[CEU][hapmap];0.95[CHB][hapmap];0.97[GIH][hapmap];0.81[JPT][hapmap];0.94[TSI][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1416855	0.90[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs1416859	0.94[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1416862	0.84[ASN][1000 genomes]
rs1474216	0.85[CHB][hapmap];0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs1578216	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1578217	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1851146	0.85[ASN][1000 genomes]
rs1888252	0.97[GIH][hapmap]
rs1891382	0.87[CEU][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1915477	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1976828	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1999240	0.97[GIH][hapmap]
rs2027356	0.86[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs2096175	0.92[EUR][1000 genomes]
rs2105344	0.89[CEU][hapmap];0.97[GIH][hapmap];0.94[TSI][hapmap];0.92[EUR][1000 genomes]
rs2153345	0.80[ASN][1000 genomes]
rs2153826	0.89[CEU][hapmap];0.97[GIH][hapmap];0.94[TSI][hapmap];0.92[EUR][1000 genomes]
rs2204023	0.86[ASN][1000 genomes]
rs2368117	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2368118	0.81[ASN][1000 genomes]
rs2368121	1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2947353	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs3737275	0.85[CHB][hapmap];0.81[GIH][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs3817420	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3818956	0.89[CEU][hapmap];0.97[GIH][hapmap];0.94[TSI][hapmap];0.92[EUR][1000 genomes]
rs3824699	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.90[MKK][hapmap];0.91[TSI][hapmap];0.90[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4403709	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4568901	0.89[CEU][hapmap];0.97[GIH][hapmap];0.94[TSI][hapmap];0.88[EUR][1000 genomes]
rs4747545	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4749084	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4749093	0.89[CEU][hapmap];0.88[EUR][1000 genomes]
rs6482520	0.80[ASN][1000 genomes]
rs6482523	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6482524	0.82[ASN][1000 genomes]
rs7074489	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7077072	0.89[CEU][hapmap];0.95[CHB][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.91[LWK][hapmap];0.82[MKK][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs7084310	0.85[CHB][hapmap];0.81[JPT][hapmap]
rs7084614	0.87[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.94[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7100134	0.88[ASN][1000 genomes]
rs7898617	0.92[CEU][hapmap];0.89[EUR][1000 genomes]
rs7904196	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7905199	0.90[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs7908212	0.88[EUR][1000 genomes]
rs7908742	0.84[ASN][1000 genomes]
rs7910068	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7914361	0.86[ASN][1000 genomes]
rs7914935	0.89[CHB][hapmap];0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs7921616	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7923264	0.84[ASN][1000 genomes]
rs7923691	0.90[CEU][hapmap];0.95[CHB][hapmap];0.92[GIH][hapmap];0.86[JPT][hapmap];0.88[TSI][hapmap];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9664363	0.82[ASN][1000 genomes]
rs982082	0.90[JPT][hapmap]
rs993397	0.90[CHB][hapmap];0.97[GIH][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs993398	0.90[CHB][hapmap];0.97[GIH][hapmap];0.85[JPT][hapmap];0.83[TSI][hapmap];0.86[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	esv1792417	chr10:26263695-26395038	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv894975	chr10:26343356-27014467	Strong transcription Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:26369000-26371200	Weak transcription	Right Atrium	heart
2	chr10:26369400-26373800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr10:26369800-26370800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr10:26370200-26370600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr10:26370200-26370600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr10:26370200-26370600	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr10:26370200-26371000	Enhancers	Colonic Mucosa	Colon

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