Variant report

Variant	rs1887673
Chromosome Location	chr9:16054631-16054632
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1328270	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1328272	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16933906	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1857024	0.92[LWK][hapmap];0.93[MKK][hapmap];0.88[YRI][hapmap]
rs2149232	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41439648	0.92[LWK][hapmap];0.93[MKK][hapmap];0.88[YRI][hapmap]
rs56312242	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56774729	1.00[AMR][1000 genomes]
rs57158144	1.00[AMR][1000 genomes]
rs58970083	1.00[AMR][1000 genomes]
rs58999162	1.00[AMR][1000 genomes]
rs59198717	1.00[AMR][1000 genomes]
rs59352577	1.00[AMR][1000 genomes]
rs59882619	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60249192	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60418791	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60641653	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60692567	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61481057	1.00[AMR][1000 genomes]
rs73411539	1.00[AMR][1000 genomes]
rs73411548	1.00[AMR][1000 genomes]
rs73411550	1.00[AMR][1000 genomes]
rs73411556	1.00[AMR][1000 genomes]
rs73411562	1.00[AMR][1000 genomes]
rs73411564	1.00[AMR][1000 genomes]
rs73411587	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73413909	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73413926	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73413946	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73413991	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73417830	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73424832	1.00[AMR][1000 genomes]
rs73424853	1.00[AMR][1000 genomes]
rs73645248	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv892637	chr9:15926508-16060746	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv949463	chr9:15970668-16377360	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv831521	chr9:15974174-16106565	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1025555	chr9:16022186-16064158	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	esv2761506	chr9:16040491-16093736	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats	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	chr9:16040600-16057600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:16045400-16057600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr9:16045600-16057600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr9:16045800-16061000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr9:16046000-16058200	Weak transcription	Fetal Kidney	kidney
6	chr9:16048600-16071400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr9:16049600-16063800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr9:16051600-16057800	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr9:16051600-16058200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr9:16053000-16057200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr9:16053400-16060200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links