Variant report

Variant	rs56822893
Chromosome Location	chr1:209891906-209891907
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11119333	0.98[AFR][1000 genomes]
rs12024779	0.95[AFR][1000 genomes]
rs12040780	0.91[AFR][1000 genomes]
rs12561766	0.85[EUR][1000 genomes]
rs17015053	0.95[AFR][1000 genomes]
rs17015076	0.85[EUR][1000 genomes]
rs17015078	0.85[EUR][1000 genomes]
rs2038053	0.85[EUR][1000 genomes]
rs2076149	0.85[EUR][1000 genomes]
rs2142860	0.85[EUR][1000 genomes]
rs2235370	0.85[EUR][1000 genomes]
rs2236902	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2272866	0.85[EUR][1000 genomes]
rs2282740	0.85[EUR][1000 genomes]
rs2294406	0.85[EUR][1000 genomes]
rs2298930	0.85[EUR][1000 genomes]
rs4140636	0.80[EUR][1000 genomes]
rs4545339	0.85[EUR][1000 genomes]
rs4844488	0.82[ASN][1000 genomes]
rs4844491	0.85[EUR][1000 genomes]
rs4844893	0.85[EUR][1000 genomes]
rs4844894	0.85[EUR][1000 genomes]
rs57283682	0.85[EUR][1000 genomes]
rs57606822	0.88[AFR][1000 genomes]
rs58627173	1.00[AFR][1000 genomes]
rs61279558	0.93[AFR][1000 genomes]
rs7515014	0.85[EUR][1000 genomes]
rs7517461	0.85[EUR][1000 genomes]
rs7528642	0.85[EUR][1000 genomes]
rs7532021	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[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	nsv999901	chr1:209600631-210205379	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv1014034	chr1:209759648-210501731	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv873139	chr1:209828955-210050794	Active TSS Enhancers Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv1004343	chr1:209879304-209909385	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv525445	chr1:209885318-209912593	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv1006632	chr1:209886202-209970355	Flanking Active TSS Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 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	chr1:209878800-209893400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr1:209886400-209893200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr1:209886400-209896400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr1:209889000-209893800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr1:209889000-209896800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr1:209891400-209892000	Enhancers	Fetal Heart	heart
7	chr1:209891600-209894400	Weak transcription	Left Ventricle	heart
8	chr1:209891800-209892000	Enhancers	Liver	Liver
9	chr1:209891800-209892000	Enhancers	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links