Variant report

Variant	rs61878582
Chromosome Location	chr11:10090565-10090566
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 96 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs10743129	0.80[EUR][1000 genomes]
rs10770103	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840337	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840338	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840344	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840359	0.92[EUR][1000 genomes]
rs10840375	0.86[EUR][1000 genomes]
rs10840377	0.80[EUR][1000 genomes]
rs11042571	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042578	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042579	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042580	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11042593	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042595	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042601	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042609	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042615	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11042618	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042623	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042627	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042632	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11042641	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11042683	0.81[EUR][1000 genomes]
rs11600251	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11600489	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11603440	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11606561	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11607682	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11607703	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12360783	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12362060	0.80[EUR][1000 genomes]
rs12362938	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12364676	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12417184	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12418212	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12418619	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12419923	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12420122	0.84[EUR][1000 genomes]
rs12420734	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12420950	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12421096	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12421179	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12421200	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12421931	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1372807	0.89[EUR][1000 genomes]
rs1372808	0.83[EUR][1000 genomes]
rs1442737	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17271847	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17356792	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17359113	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1822291	0.84[EUR][1000 genomes]
rs1822292	0.81[EUR][1000 genomes]
rs1867135	0.86[EUR][1000 genomes]
rs2197171	0.83[EUR][1000 genomes]
rs2403292	0.90[EUR][1000 genomes]
rs28731164	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34683105	0.90[EUR][1000 genomes]
rs4271380	0.84[EUR][1000 genomes]
rs4281477	0.90[EUR][1000 genomes]
rs4385889	0.84[EUR][1000 genomes]
rs4450168	1.00[ASN][1000 genomes]
rs4478985	0.90[EUR][1000 genomes]
rs4519084	0.84[EUR][1000 genomes]
rs4529876	0.91[EUR][1000 genomes]
rs4643073	0.82[EUR][1000 genomes]
rs4910095	0.90[EUR][1000 genomes]
rs4910098	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55788918	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55796222	0.84[EUR][1000 genomes]
rs56853694	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs61877048	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61877049	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61878587	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61878622	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61878636	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7114303	0.90[EUR][1000 genomes]
rs7123453	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7123820	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7131445	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7924875	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7928959	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7931804	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7935774	0.85[EUR][1000 genomes]
rs7935934	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7938491	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7938502	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7938647	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7938788	0.89[EUR][1000 genomes]
rs7945980	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7946995	0.91[EUR][1000 genomes]
rs7947306	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7948215	0.86[EUR][1000 genomes]
rs7950447	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][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	nsv933855	chr11:9645441-10130519	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv553476	chr11:10024311-10117435	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10072400-10101200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr11:10074000-10098200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr11:10085000-10098200	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr11:10087600-10090600	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr11:10087800-10097800	Weak transcription	Right Atrium	heart
6	chr11:10090000-10098000	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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