Variant report

Variant	rs56389925
Chromosome Location	chr2:210236543-210236544
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10497928	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10497930	0.90[EUR][1000 genomes]
rs11889422	0.81[EUR][1000 genomes]
rs17235072	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17674661	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs17675086	0.96[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs17726336	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34048155	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4435391	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72989919	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72989935	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72990000	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72991804	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72991807	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72991868	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72991898	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72993710	0.90[EUR][1000 genomes]
rs72993758	0.84[EUR][1000 genomes]
rs72995630	0.81[EUR][1000 genomes]
rs73006162	0.82[AMR][1000 genomes]
rs7565855	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7587613	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7592860	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7606091	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7608417	0.80[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1000214	chr2:209987607-210308626	Strong transcription Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv536133	chr2:209987607-210308626	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv1003864	chr2:210063871-210308626	Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv875764	chr2:210195717-210240990	Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv834518	chr2:210204958-210372744	Weak transcription Enhancers Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:210234000-210242400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr2:210234600-210237200	Weak transcription	HUVEC	blood vessel
3	chr2:210234600-210239200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links