Variant report

Variant	rs57862179
Chromosome Location	chr2:101036605-101036606
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	CEBPB	chr2:101036305-101036750	HepG2	liver:	n/a	chr2:101036556-101036567
2	CEBPB	chr2:101036462-101036663	A549	lung:	n/a	chr2:101036556-101036567
3	CEBPB	chr2:101036408-101036623	H1-hESC	embryonic stem cell:	n/a	chr2:101036556-101036567
4	CEBPB	chr2:101036454-101036677	HepG2	liver:	n/a	chr2:101036556-101036567
5	CEBPB	chr2:101036360-101036727	K562	blood:	n/a	chr2:101036556-101036567
6	CEBPB	chr2:101036370-101036735	HepG2	liver:	n/a	chr2:101036556-101036567
7	CEBPB	chr2:101036397-101036723	IMR90	lung:	n/a	chr2:101036556-101036567
8	CEBPB	chr2:101036433-101036634	Hela-S3	cervix:	n/a	chr2:101036556-101036567
9	CTCF	chr2:101036480-101036630	NB4	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:101029935..101035569-chr2:101035669..101041059,9	MCF-7	breast:
2	chr2:101032643..101036022-chr2:101036491..101040981,5	K562	blood:

Variant related genes	Relation type
CHST10	TF binding region
ENSG00000115526	Chromatin interaction

Extended variants
information (count: 118 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:112)

rs_ID	r²[population]
rs10167159	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs10172841	0.93[ASN][1000 genomes]
rs10176978	0.86[ASN][1000 genomes]
rs10180570	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs10180685	0.93[ASN][1000 genomes]
rs10183063	0.98[ASN][1000 genomes]
rs10184899	0.83[AMR][1000 genomes]
rs10193535	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs10206374	0.83[AMR][1000 genomes]
rs1057056	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1057063	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1124009	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs13391930	0.83[AMR][1000 genomes]
rs13396147	0.83[AMR][1000 genomes]
rs13400841	0.94[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs13404823	0.83[AMR][1000 genomes]
rs13407408	0.83[AMR][1000 genomes]
rs13407648	0.83[AMR][1000 genomes]
rs13407891	0.83[AMR][1000 genomes]
rs13410582	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs13419808	0.83[AMR][1000 genomes]
rs1347721	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs1437972	0.86[ASN][1000 genomes]
rs17024034	0.86[ASN][1000 genomes]
rs17024129	0.83[AMR][1000 genomes]
rs17024136	0.83[AMR][1000 genomes]
rs17024144	0.83[AMR][1000 genomes]
rs17024209	0.97[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1898571	0.83[AMR][1000 genomes]
rs1898573	0.83[ASN][1000 genomes]
rs2083148	0.86[ASN][1000 genomes]
rs2309801	0.94[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs3748936	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3791358	0.98[ASN][1000 genomes]
rs4149506	0.97[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs4149509	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4149514	1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4149515	0.97[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4149516	0.93[ASN][1000 genomes]
rs4850932	0.93[ASN][1000 genomes]
rs55640826	0.83[AMR][1000 genomes]
rs55843950	0.83[AMR][1000 genomes]
rs55932868	0.86[ASN][1000 genomes]
rs56118658	0.83[AMR][1000 genomes]
rs56656536	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs56741959	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58164864	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58674788	0.86[ASN][1000 genomes]
rs59701896	0.86[ASN][1000 genomes]
rs59858985	0.86[ASN][1000 genomes]
rs60468180	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs60566188	0.86[ASN][1000 genomes]
rs60609848	0.93[AMR][1000 genomes]
rs60898093	0.83[AMR][1000 genomes]
rs61321970	0.83[AMR][1000 genomes]
rs61710328	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6542933	0.86[ASN][1000 genomes]
rs6542945	0.86[ASN][1000 genomes]
rs6542946	0.90[ASN][1000 genomes]
rs6706707	0.86[ASN][1000 genomes]
rs6716009	0.83[AMR][1000 genomes]
rs6716367	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs6724695	0.83[AMR][1000 genomes]
rs6725672	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6728575	0.86[ASN][1000 genomes]
rs6736938	0.97[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6738566	0.88[ASN][1000 genomes]
rs6739589	0.93[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6749572	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6754869	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6755285	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6758161	0.83[AMR][1000 genomes]
rs6758622	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6761084	0.94[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs72960184	0.83[AMR][1000 genomes]
rs72960186	0.83[AMR][1000 genomes]
rs72960202	0.83[AMR][1000 genomes]
rs73966105	0.86[ASN][1000 genomes]
rs73966106	0.86[ASN][1000 genomes]
rs73968413	0.86[ASN][1000 genomes]
rs7559084	0.86[ASN][1000 genomes]
rs7559939	0.83[AMR][1000 genomes]
rs7559946	0.83[AMR][1000 genomes]
rs7561065	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7562184	0.86[ASN][1000 genomes]
rs7562461	0.83[AMR][1000 genomes]
rs7562479	0.83[AMR][1000 genomes]
rs7562486	0.83[AMR][1000 genomes]
rs7562615	0.83[AMR][1000 genomes]
rs7562636	0.86[ASN][1000 genomes]
rs7562754	0.86[ASN][1000 genomes]
rs7564178	0.86[AMR][1000 genomes]
rs7565502	0.86[ASN][1000 genomes]
rs7567130	0.88[ASN][1000 genomes]
rs7571410	0.86[ASN][1000 genomes]
rs7571651	0.86[ASN][1000 genomes]
rs7571659	0.93[ASN][1000 genomes]
rs7572119	0.83[AMR][1000 genomes]
rs7574684	0.83[AMR][1000 genomes]
rs7575422	0.93[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7576749	0.83[AMR][1000 genomes]
rs7582096	0.97[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7582546	0.83[AMR][1000 genomes]
rs7585713	0.97[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7585898	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7587333	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs7596483	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7598205	0.86[ASN][1000 genomes]
rs7598227	0.86[ASN][1000 genomes]
rs7605834	0.86[ASN][1000 genomes]
rs876439	0.86[ASN][1000 genomes]
rs9308834	0.81[AFR][1000 genomes];0.93[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	nsv1007777	chr2:100816913-101308914	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv535844	chr2:100816913-101308914	Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	nsv582531	chr2:100908508-101207639	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
4	nsv916792	chr2:101021066-101525200	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv582532	chr2:101029002-101531943	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	nsv829583	chr2:101031032-101038750	Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 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	chr2:101034400-101037000	Weak transcription	Spleen	Spleen
2	chr2:101034400-101038400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr2:101034600-101037000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr2:101034600-101037400	Weak transcription	Fetal Lung	lung
5	chr2:101034600-101038800	Weak transcription	Colon Smooth Muscle	Colon
6	chr2:101034600-101043000	Weak transcription	Placenta	Placenta
7	chr2:101034800-101038800	Weak transcription	Brain Hippocampus Middle	brain
8	chr2:101034800-101043800	Weak transcription	Brain Cingulate Gyrus	brain
9	chr2:101035000-101040000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr2:101035200-101039800	Weak transcription	NHDF-Ad	bronchial
11	chr2:101035200-101040400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr2:101036200-101039600	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr2:101036200-101039600	Enhancers	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links