Variant report

Variant	rs10896674
Chromosome Location	chr11:57739901-57739902
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10750876	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10750878	0.88[CEU][hapmap];0.91[CHB][hapmap];0.81[JPT][hapmap]
rs10750880	0.88[CEU][hapmap];0.81[CHB][hapmap]
rs10750882	0.82[CEU][hapmap]
rs10792119	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10792120	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10792121	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10792122	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10792126	0.80[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs10792128	0.80[AMR][1000 genomes]
rs10792129	0.80[ASN][1000 genomes]
rs10896663	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10896668	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10896671	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10896672	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10896675	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10896690	0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs10896692	0.80[AMR][1000 genomes]
rs10896696	0.83[CEU][hapmap];0.91[CHB][hapmap]
rs11229194	0.88[AMR][1000 genomes]
rs11229195	0.86[AMR][1000 genomes]
rs11229221	0.82[ASN][1000 genomes]
rs1123307	0.83[CEU][hapmap];0.91[CHB][hapmap]
rs11512733	0.85[AMR][1000 genomes]
rs12281690	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12363350	0.82[CEU][hapmap]
rs1317828	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1447169	0.82[CEU][hapmap]
rs1510419	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1510421	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1848880	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1848882	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1848883	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1868043	0.83[CEU][hapmap];0.90[CHB][hapmap]
rs2003375	0.83[CEU][hapmap];0.91[CHB][hapmap]
rs2089748	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2136726	0.93[EUR][1000 genomes]
rs2167358	0.83[CEU][hapmap];0.91[CHB][hapmap]
rs2866828	0.94[EUR][1000 genomes]
rs2866829	0.94[EUR][1000 genomes]
rs34243081	0.85[AMR][1000 genomes]
rs3974323	0.82[CEU][hapmap]
rs4272801	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4939170	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4939176	0.88[CEU][hapmap];0.91[CHB][hapmap];0.81[JPT][hapmap]
rs4939182	0.82[CEU][hapmap]
rs6591447	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6591455	0.82[CEU][hapmap];0.81[CHB][hapmap]
rs7117711	0.81[CEU][hapmap]
rs7118536	0.88[CEU][hapmap];0.91[CHB][hapmap];0.81[JPT][hapmap]
rs7924376	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7924454	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs921133	0.82[CEU][hapmap];0.81[JPT][hapmap]
rs938012	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs976429	0.83[CEU][hapmap];0.91[CHB][hapmap]
rs9794898	0.85[EUR][1000 genomes]
rs9795237	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044030	chr11:57073395-58035564	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
2	nsv541047	chr11:57073395-58035564	Active TSS Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
3	nsv1054205	chr11:57544264-58358509	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
4	nsv897589	chr11:57623815-58052357	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
5	nsv517822	chr11:57728993-57751001	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:57738800-57740200	Weak transcription	Pancreas	Pancrea
2	chr11:57738800-57740400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr11:57738800-57745200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr11:57739000-57742400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr11:57739600-57740000	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr11:57739800-57740600	Flanking Active TSS	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links