Variant report

Variant	rs11941980
Chromosome Location	chr4:89820656-89820657
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11930510	1.00[AMR][1000 genomes]
rs11935197	1.00[AMR][1000 genomes]
rs11942849	1.00[AMR][1000 genomes]
rs11945054	1.00[AMR][1000 genomes]
rs11946359	1.00[AMR][1000 genomes]
rs11947489	1.00[AMR][1000 genomes]
rs35988187	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72665854	1.00[AMR][1000 genomes]
rs7655875	1.00[AMR][1000 genomes]
rs7666383	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7690981	0.82[AFR][1000 genomes];1.00[AMR][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	nsv470051	chr4:89644931-90643144	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1009354	chr4:89725914-89985155	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv998651	chr4:89800245-89933445	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv537175	chr4:89800245-89933445	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv879532	chr4:89811195-89917135	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:89802600-89825600	Weak transcription	Ovary	ovary
2	chr4:89809200-89828800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr4:89813400-89821400	Weak transcription	Fetal Intestine Small	intestine
4	chr4:89816000-89825600	Weak transcription	Placenta	Placenta
5	chr4:89816000-89829000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr4:89816600-89827400	Weak transcription	Fetal Kidney	kidney
7	chr4:89816800-89827800	Weak transcription	Fetal Brain Male	brain
8	chr4:89818000-89829000	Weak transcription	Pancreas	Pancrea
9	chr4:89818800-89820800	Weak transcription	Fetal Lung	lung
10	chr4:89818800-89821400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr4:89818800-89828800	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr4:89820000-89825400	Weak transcription	Duodenum Mucosa	Duodenum
13	chr4:89820000-89859200	Weak transcription	Rectal Smooth Muscle	rectum
14	chr4:89820200-89821400	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast

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

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