Variant report

Variant	rs16890422
Chromosome Location	chr5:59293153-59293154
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10940653	1.00[YRI][hapmap]
rs16890345	0.85[YRI][hapmap]
rs16890385	0.92[YRI][hapmap]
rs6869787	1.00[YRI][hapmap]
rs6890086	0.91[YRI][hapmap]
rs6894929	0.85[YRI][hapmap]
rs73098713	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73098731	1.00[AMR][1000 genomes]
rs73103303	0.91[AFR][1000 genomes]
rs7700565	0.85[YRI][hapmap]
rs7718227	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7737949	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9686880	0.97[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	nsv1018015	chr5:58889470-59532667	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv537766	chr5:58889470-59532667	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv534614	chr5:58962510-59388525	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv1025856	chr5:59188419-59928852	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
5	nsv1027171	chr5:59267959-59340525	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:59283400-59293600	Weak transcription	Primary B cells from cord blood	blood
2	chr5:59283600-59298600	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr5:59288000-59296600	Weak transcription	Aorta	Aorta
4	chr5:59291600-59293400	Enhancers	Placenta Amnion	Placenta Amnion
5	chr5:59291600-59296800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr5:59291800-59296200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr5:59292200-59294800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr5:59292800-59293600	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr5:59292800-59293800	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr5:59293000-59293200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr5:59293000-59293400	Enhancers	iPS-15b Cell Line	embryonic stem cell
12	chr5:59293000-59293400	Enhancers	iPS-18 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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