Variant report

Variant	rs12921255
Chromosome Location	chr16:80062208-80062209
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr16:80061252..80063823-chr16:80117741..80119543,2	MCF-7	breast:
2	chr16:80040089..80044174-chr16:80060281..80063913,4	MCF-7	breast:
3	chr16:80059154..80062850-chr16:80065920..80069891,5	MCF-7	breast:
4	chr16:80061308..80063020-chr16:80110372..80112564,2	MCF-7	breast:
5	chr16:80052898..80058811-chr16:80059069..80065197,11	MCF-7	breast:
6	chr16:80040033..80042042-chr16:80061174..80063546,2	K562	blood:
7	chr16:80061244..80063092-chr16:80096922..80099593,2	MCF-7	breast:
8	chr16:80061826..80063381-chr16:80077866..80079603,2	MCF-7	breast:
9	chr16:80012173..80015037-chr16:80061330..80063455,2	K562	blood:
10	chr16:80051481..80054356-chr16:80061136..80062736,2	K562	blood:
11	chr16:80048792..80050777-chr16:80060648..80062252,3	MCF-7	breast:
12	chr16:80060384..80062821-chr16:80069228..80071837,2	MCF-7	breast:

No data

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1115722	0.83[EUR][1000 genomes]
rs11645922	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12716881	0.92[EUR][1000 genomes]
rs13333795	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1478505	0.89[EUR][1000 genomes]
rs1478506	0.89[EUR][1000 genomes]
rs2199645	0.83[EUR][1000 genomes]
rs34941385	0.82[EUR][1000 genomes]
rs4354957	0.88[EUR][1000 genomes]
rs4363873	0.83[EUR][1000 genomes]
rs4365299	0.93[EUR][1000 genomes]
rs4402582	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4407073	0.88[EUR][1000 genomes]
rs4500741	0.96[EUR][1000 genomes]
rs4500745	0.88[EUR][1000 genomes]
rs4545830	0.84[EUR][1000 genomes]
rs4888067	0.94[EUR][1000 genomes]
rs4889067	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4889068	0.99[EUR][1000 genomes]
rs4889084	0.90[EUR][1000 genomes]
rs4889086	0.90[EUR][1000 genomes]
rs4889090	0.90[EUR][1000 genomes]
rs4889092	0.88[EUR][1000 genomes]
rs4889093	0.83[EUR][1000 genomes]
rs6564727	0.89[EUR][1000 genomes]
rs6564728	0.88[EUR][1000 genomes]
rs6564729	0.88[EUR][1000 genomes]
rs6564730	0.88[EUR][1000 genomes]
rs7184607	0.87[EUR][1000 genomes]
rs7185080	0.83[EUR][1000 genomes]
rs7192544	0.90[EUR][1000 genomes]
rs7192753	0.89[EUR][1000 genomes]
rs7193465	0.93[EUR][1000 genomes]
rs8050142	0.91[EUR][1000 genomes]
rs8050160	0.91[EUR][1000 genomes]
rs8050173	0.83[EUR][1000 genomes]
rs8057937	0.82[EUR][1000 genomes]
rs8059251	0.90[EUR][1000 genomes]
rs9937844	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9940390	0.83[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	nsv573285	chr16:79158182-80127326	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv573294	chr16:80005642-80131944	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:80060400-80062400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr16:80060400-80063600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr16:80060400-80064600	Enhancers	HMEC	breast
4	chr16:80060800-80063400	Enhancers	Fetal Stomach	stomach
5	chr16:80061400-80062800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr16:80061400-80068800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr16:80061600-80062400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr16:80061600-80063200	Enhancers	Placenta Amnion	Placenta Amnion
9	chr16:80061600-80064000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr16:80061600-80064000	Enhancers	K562	blood
11	chr16:80061600-80064600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr16:80061600-80065200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr16:80061800-80062400	Enhancers	HUVEC	blood vessel
14	chr16:80061800-80063200	Weak transcription	Fetal Intestine Large	intestine
15	chr16:80061800-80063400	Enhancers	ES-I3 Cell Line	embryonic stem cell
16	chr16:80061800-80063400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr16:80062000-80062600	Weak transcription	Fetal Intestine Small	intestine
18	chr16:80062000-80062600	Enhancers	A549	lung
19	chr16:80062000-80063800	Weak transcription	Fetal Thymus	thymus
20	chr16:80062000-80064600	Enhancers	NHEK	skin
21	chr16:80062000-80068000	Weak transcription	HSMM	muscle
22	chr16:80062000-80069800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr16:80062000-80075000	Weak transcription	NH-A	brain
24	chr16:80062200-80062400	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr16:80062200-80062400	Enhancers	Esophagus	oesophagus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links