Variant report

Variant	rs28523344
Chromosome Location	chr4:152800554-152800555
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10013151	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11932027	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11936886	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17027990	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17027993	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17027997	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35873670	0.86[AFR][1000 genomes]
rs57567968	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73862586	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73862587	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73862589	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73862595	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73862598	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73862599	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs901211	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432644	chr4:152635395-153023402	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	esv2757086	chr4:152776271-152809738	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	esv2759289	chr4:152776271-152809738	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv2752342	chr4:152789393-152805443	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	esv2753274	chr4:152789393-152805609	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv595731	chr4:152790580-152831309	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	esv2754023	chr4:152791533-152805609	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv432650	chr4:152791533-152805609	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv432652	chr4:152791533-152818018	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv1030328	chr4:152791533-152875666	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
11	nsv1028836	chr4:152791680-152879097	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:152796000-152801000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr4:152796400-152808200	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr4:152796600-152800600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr4:152796600-152806800	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr4:152796600-152807200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr4:152798000-152801600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr4:152799600-152801600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr4:152799600-152802200	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr4:152799800-152800800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr4:152799800-152801000	Weak transcription	Brain Germinal Matrix	brain
11	chr4:152799800-152803000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr4:152800000-152801000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr4:152800200-152801200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr4:152800200-152801800	Enhancers	H1 Cell Line	embryonic stem cell
15	chr4:152800200-152801800	Enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr4:152800200-152801800	Enhancers	Fetal Brain Male	brain
17	chr4:152800400-152802200	Enhancers	HUES48 Cell Line	embryonic stem cell

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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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