Variant report

Variant	rs72948906
Chromosome Location	chr3:102397934-102397935
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:102390233..102392000-chr3:102397005..102399673,2	K562	blood:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10212345	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13325919	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1391424	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1498080	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1506435	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1589286	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28367035	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28395323	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28482824	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28574802	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28775870	0.86[EUR][1000 genomes]
rs28799419	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55821459	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57456969	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6779876	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6783594	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73863972	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7612648	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7644256	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9822912	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9825362	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9845442	1.00[EUR][1000 genomes]
rs9847689	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9860789	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9873502	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007340	chr3:102108954-102725099	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv536676	chr3:102108954-102725099	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv1009392	chr3:102199756-102631205	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv877228	chr3:102345638-102751470	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv591190	chr3:102345638-102946216	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
6	nsv834776	chr3:102351486-102532042	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	nsv1000584	chr3:102358773-102923378	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
8	nsv915978	chr3:102386795-102949530	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:102393000-102398400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr3:102393000-102399000	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr3:102393000-102399000	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr3:102393000-102399200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr3:102393000-102399200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr3:102393000-102406400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr3:102393200-102398000	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr3:102393800-102399200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr3:102397800-102398400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links