Variant report

Variant	rs481855
Chromosome Location	chr11:100969360-100969361
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:100963763..100967050-chr11:100968885..100972063,4	MCF-7	breast:
2	chr11:100967255..100969674-chr11:100973623..100976160,3	MCF-7	breast:

Extended variants
information (count: 131 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:129)

rs_ID	r²[population]
rs10895057	0.89[CHB][hapmap];0.85[CHD][hapmap]
rs10895058	0.83[CHB][hapmap];0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs10895063	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10895065	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11224575	0.89[CHB][hapmap];0.83[JPT][hapmap]
rs11224579	0.94[JPT][hapmap]
rs11224580	0.83[CHB][hapmap];0.94[CHD][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs11224589	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11224592	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11224593	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11224594	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11224598	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.97[TSI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11224599	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1144133	1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs1145460	0.88[CHB][hapmap]
rs1145464	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11571159	0.90[ASN][1000 genomes]
rs11571171	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11571234	0.81[CHB][hapmap]
rs1217845	0.96[ASN][1000 genomes]
rs1217860	0.94[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs12225081	0.90[ASN][1000 genomes]
rs1302679	0.98[ASN][1000 genomes]
rs1303052	1.00[ASN][1000 genomes]
rs1379131	0.87[CHB][hapmap]
rs1456764	0.96[ASN][1000 genomes]
rs1456765	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1824126	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1824127	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1824128	0.89[CHB][hapmap];0.85[CHD][hapmap]
rs1893807	0.88[ASN][1000 genomes]
rs478850	0.94[CHB][hapmap]
rs483493	0.92[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs483678	1.00[ASN][1000 genomes]
rs484389	0.94[CHB][hapmap];0.88[CHD][hapmap]
rs485506	0.96[ASN][1000 genomes]
rs486992	0.89[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs487271	1.00[ASN][1000 genomes]
rs489034	0.98[ASN][1000 genomes]
rs489397	0.93[JPT][hapmap]
rs491893	0.94[ASN][1000 genomes]
rs492827	0.94[CHB][hapmap];0.81[CHD][hapmap]
rs494424	1.00[ASN][1000 genomes]
rs495029	0.88[JPT][hapmap]
rs495189	0.82[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap]
rs498370	0.94[CHB][hapmap]
rs499664	0.98[ASN][1000 genomes]
rs500760	0.94[CHB][hapmap];0.85[CHD][hapmap]
rs501732	0.82[CHB][hapmap];0.94[JPT][hapmap]
rs503602	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs504372	0.94[CHB][hapmap]
rs504402	0.88[CHB][hapmap]
rs506092	0.98[ASN][1000 genomes]
rs507044	1.00[ASN][1000 genomes]
rs508120	1.00[ASN][1000 genomes]
rs508533	0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs508653	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.82[MKK][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs511298	0.94[CHB][hapmap];0.97[CHD][hapmap];0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs511484	0.89[CHB][hapmap]
rs513081	0.98[ASN][1000 genomes]
rs515059	1.00[ASN][1000 genomes]
rs516693	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs516895	0.87[CHD][hapmap];0.94[JPT][hapmap]
rs518382	0.94[CHB][hapmap]
rs521028	0.94[ASN][1000 genomes]
rs522053	0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs523323	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs523332	0.87[CHD][hapmap];0.94[JPT][hapmap]
rs523630	0.94[CHB][hapmap]
rs529359	0.82[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs529775	0.92[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs531666	1.00[ASN][1000 genomes]
rs535362	0.93[CHB][hapmap];0.82[JPT][hapmap]
rs537681	0.82[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs538915	1.00[CHB][hapmap];0.97[CHD][hapmap];0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs540622	0.94[CHB][hapmap];0.88[CHD][hapmap]
rs542384	0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs542491	0.94[CHB][hapmap]
rs543215	0.89[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs545835	0.94[CHB][hapmap]
rs546763	0.94[CHB][hapmap];0.88[JPT][hapmap]
rs547378	0.92[CHB][hapmap]
rs547565	1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs548668	0.94[CHB][hapmap]
rs550382	0.93[CHB][hapmap]
rs550468	0.96[ASN][1000 genomes]
rs553272	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs554101	0.97[ASN][1000 genomes]
rs555572	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs555653	0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs558959	0.94[CHB][hapmap]
rs560527	0.94[ASN][1000 genomes]
rs561650	0.87[ASN][1000 genomes]
rs563656	0.89[CHB][hapmap];0.83[CHD][hapmap]
rs566351	0.86[ASN][1000 genomes]
rs569857	1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs569938	0.86[ASN][1000 genomes]
rs572402	0.93[CHB][hapmap]
rs572483	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][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]
rs572580	0.94[CHB][hapmap];0.91[CHD][hapmap]
rs572698	0.94[CHB][hapmap]
rs572775	0.98[ASN][1000 genomes]
rs578938	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs587955	0.94[ASN][1000 genomes]
rs588913	0.94[CHB][hapmap]
rs590688	0.94[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs592080	0.94[CHB][hapmap]
rs600837	0.95[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs601046	0.94[CHB][hapmap]
rs606789	0.94[CHB][hapmap];0.88[CHD][hapmap]
rs613120	0.91[ASN][1000 genomes]
rs618032	0.88[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs618972	1.00[CHB][hapmap];0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs634179	0.94[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs635984	0.94[CHB][hapmap]
rs651977	0.94[ASN][1000 genomes]
rs653752	0.89[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs657516	0.89[ASN][1000 genomes]
rs660541	0.94[CHB][hapmap];0.88[CHD][hapmap]
rs665617	0.94[CHB][hapmap];0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs666553	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.96[ASN][1000 genomes]
rs670872	0.83[ASN][1000 genomes]
rs680670	0.82[CHB][hapmap];0.87[JPT][hapmap]
rs685828	1.00[ASN][1000 genomes]
rs694070	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs694317	0.98[ASN][1000 genomes]
rs7106686	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];0.94[ASN][1000 genomes]
rs7116336	0.83[CHB][hapmap];0.94[CHD][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs73573609	0.96[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	nsv1048356	chr11:100713096-101058995	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv541154	chr11:100713096-101058995	Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs481855	TNNC2	trans	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:100905400-100997600	Weak transcription	Left Ventricle	heart
2	chr11:100959600-100971000	Weak transcription	Fetal Lung	lung
3	chr11:100962800-100970200	Weak transcription	Right Atrium	heart
4	chr11:100967400-100970600	Weak transcription	Aorta	Aorta
5	chr11:100968000-100977600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr11:100968800-100971000	Enhancers	Ovary	ovary

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