Variant report

Variant	rs11939399
Chromosome Location	chr4:88150022-88150023
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs6531961	0.83[ASN][1000 genomes]
rs6531964	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6846760	0.82[EUR][1000 genomes]
rs73839119	0.83[ASN][1000 genomes]
rs73839122	0.83[ASN][1000 genomes]
rs7679257	0.83[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	nsv997750	chr4:87933945-88264127	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv1007020	chr4:88046263-88235018	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv537169	chr4:88046263-88235018	Weak transcription Active TSS Strong transcription Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 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	chr4:88142400-88155200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr4:88142400-88156400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr4:88145800-88156800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr4:88148200-88152000	Enhancers	Fetal Intestine Large	intestine
5	chr4:88148200-88152400	Enhancers	Fetal Intestine Small	intestine
6	chr4:88148400-88150800	Enhancers	Rectal Mucosa Donor 31	rectum
7	chr4:88148600-88150400	Enhancers	Liver	Liver
8	chr4:88148600-88150800	Enhancers	Duodenum Mucosa	Duodenum
9	chr4:88149000-88150400	Weak transcription	Colonic Mucosa	Colon
10	chr4:88149400-88150200	Enhancers	HepG2	liver
11	chr4:88149400-88150400	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr4:88149600-88150800	Enhancers	Rectal Mucosa Donor 29	rectum
13	chr4:88149800-88150400	Enhancers	K562	blood
14	chr4:88149800-88156600	Weak transcription	Hela-S3	cervix

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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

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