Variant report

Variant	rs298732
Chromosome Location	chr1:224842140-224842141
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	chr1:224840003..224842948-chr1:224864305..224866677,2	MCF-7	breast:
2	chr1:224838583..224840769-chr1:224842090..224844375,2	K562	blood:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10799277	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10799590	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10915684	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10915694	0.85[EUR][1000 genomes]
rs10915696	0.95[EUR][1000 genomes]
rs10915698	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10915699	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12092438	0.96[EUR][1000 genomes]
rs12130499	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12132665	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13374487	0.84[EUR][1000 genomes]
rs1369847	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1436169	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1436171	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1465768	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1603917	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1603918	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs169888	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1965777	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2405525	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2648746	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2897161	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2936575	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs298733	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs298734	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs298735	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs298738	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs298739	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2993124	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3012185	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4147293	0.97[EUR][1000 genomes]
rs4653402	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4653404	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4653591	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4653592	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs56881651	0.85[EUR][1000 genomes]
rs61676104	0.84[EUR][1000 genomes]
rs6667034	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6686604	0.96[EUR][1000 genomes]
rs6686633	0.96[EUR][1000 genomes]
rs67817586	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs713098	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7511897	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7521396	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7535296	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7537973	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7542431	0.85[EUR][1000 genomes]
rs7542995	0.85[EUR][1000 genomes]
rs7543218	0.95[EUR][1000 genomes]
rs7544312	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7545574	0.94[EUR][1000 genomes]
rs873594	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014717	chr1:224551939-224885543	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv535311	chr1:224551939-224885543	Strong transcription Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:224828800-224853400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:224832200-224884400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr1:224832800-224869000	Weak transcription	Dnd41	blood
4	chr1:224833200-224874400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr1:224838400-224853200	Weak transcription	Psoas Muscle	Psoas
6	chr1:224840800-224842600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr1:224840800-224842800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr1:224840800-224845000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr1:224840800-224850800	Weak transcription	NHDF-Ad	bronchial
10	chr1:224840800-224856800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr1:224840800-224858000	Weak transcription	NH-A	brain
12	chr1:224841000-224856600	Weak transcription	Pancreas	Pancrea
13	chr1:224841600-224843000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links