Variant report

Variant	rs6040541
Chromosome Location	chr20:11310678-11310679
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs11697845	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11698552	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1883968	0.85[EUR][1000 genomes]
rs1883970	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2143872	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2207129	0.85[EUR][1000 genomes]
rs2327403	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28374547	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4347904	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4359714	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4813054	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4813055	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4813056	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4813985	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4813988	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4813989	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4813990	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4813991	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs59242255	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6033110	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6033112	0.96[EUR][1000 genomes]
rs6040569	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6040575	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6040576	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6040578	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6074271	0.80[EUR][1000 genomes]
rs6078121	0.80[EUR][1000 genomes]
rs6078122	0.80[EUR][1000 genomes]
rs6108927	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6131195	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6131196	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6131197	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6131199	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6131200	0.85[EUR][1000 genomes]
rs6134180	0.80[EUR][1000 genomes]
rs6134198	0.84[ASN][1000 genomes]
rs6134212	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6134216	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6134217	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6134219	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6134220	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62191844	0.84[ASN][1000 genomes]
rs62193969	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs68130714	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs987743	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1065969	chr20:10850562-11464172	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv544181	chr20:10850562-11464172	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv585415	chr20:11134907-11383327	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:11309800-11314000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr20:11310200-11311400	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr20:11310200-11314600	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr20:11310200-11315200	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr20:11310200-11315200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr20:11310200-11315400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr20:11310600-11311600	Weak transcription	NHEK	skin
8	chr20:11310600-11314600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links