Variant report

Variant	rs11923741
Chromosome Location	chr3:59502310-59502311
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11130714	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12486826	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12487257	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12489949	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12492287	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12492308	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12493195	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17275189	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17275950	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4679487	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs56197311	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs57042572	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs58664036	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73837348	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73837355	0.93[AMR][1000 genomes];0.86[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	nsv1011181	chr3:58665373-59542339	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv536574	chr3:58665373-59542339	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv534257	chr3:58855959-59606464	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv998676	chr3:59485915-59519363	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv876836	chr3:59500394-59664687	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59499600-59503200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr3:59500200-59503800	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr3:59501200-59502800	Weak transcription	Primary T cells from cord blood	blood
4	chr3:59501200-59503600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr3:59501400-59502800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr3:59501400-59503800	Enhancers	Fetal Lung	lung
7	chr3:59501600-59503000	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr3:59501600-59503800	Enhancers	Fetal Kidney	kidney
9	chr3:59502000-59503000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr3:59502000-59503000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr3:59502200-59502600	Weak transcription	Dnd41	blood

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links