Variant report

Variant	rs3133821
Chromosome Location	chr8:104300722-104300723
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EP300	chr8:104300619-104301513	SK-N-SH	brain:	n/a	n/a
2	FOXM1	chr8:104300624-104301447	SK-N-SH	brain:	n/a	n/a
3	TCF12	chr8:104300658-104301726	SK-N-SH	brain:	n/a	n/a
4	TCF12	chr8:104300597-104301721	SK-N-SH	brain:	n/a	n/a
5	EP300	chr8:104300709-104301476	SK-N-SH	brain:	n/a	n/a
6	GATA3	chr8:104300702-104301553	SK-N-SH	brain:	n/a	n/a

Variant related genes	Relation type
ENSG00000247081	TF binding region

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs12541167	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12543038	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13275377	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13278361	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1353212	0.87[AMR][1000 genomes]
rs1353213	0.87[AMR][1000 genomes]
rs1403293	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1464551	0.80[ASN][1000 genomes]
rs1494278	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1522707	0.84[AMR][1000 genomes]
rs1522713	0.92[AMR][1000 genomes]
rs1568641	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16870243	0.83[AMR][1000 genomes]
rs16870245	0.83[AMR][1000 genomes]
rs16870249	0.83[AMR][1000 genomes]
rs17205332	0.87[AMR][1000 genomes]
rs1965482	0.81[ASN][1000 genomes]
rs1982892	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1982893	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2131860	0.92[AMR][1000 genomes]
rs2220825	0.87[AMR][1000 genomes]
rs2270525	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3104029	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3104031	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3107648	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3107649	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3116457	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3116462	0.98[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3116464	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3116466	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3116468	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3133820	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3133824	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3133825	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3133830	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3133832	0.84[ASN][1000 genomes]
rs3133834	0.84[ASN][1000 genomes]
rs3133835	0.82[ASN][1000 genomes]
rs34185273	0.87[AMR][1000 genomes]
rs34201011	0.87[AMR][1000 genomes]
rs34273148	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34337822	0.83[AMR][1000 genomes]
rs827577	0.80[ASN][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	nsv429931	chr8:104097396-104878014	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
2	esv1848810	chr8:104128496-104369288	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	esv1844303	chr8:104128696-104369090	Genic enhancers Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
4	nsv1015965	chr8:104192086-104361108	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
5	nsv1017326	chr8:104236193-104313235	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
6	nsv1023181	chr8:104298542-104366365	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 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	chr8:104289200-104302000	Weak transcription	Fetal Heart	heart
2	chr8:104293800-104310000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr8:104294000-104306000	Weak transcription	Primary hematopoietic stem cells	blood
4	chr8:104294000-104306000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr8:104294400-104300800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr8:104295200-104300800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr8:104295400-104305600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr8:104300000-104301000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr8:104300200-104302800	Enhancers	NHDF-Ad	bronchial
10	chr8:104300400-104301400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr8:104300400-104302800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr8:104300400-104305600	Weak transcription	NHLF	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links