Variant report

Variant	rs57770325
Chromosome Location	chr13:110767329-110767330
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:110761020..110763183-chr13:110765963..110768234,2	MCF-7	breast:
2	chr13:110445785..110447746-chr13:110765342..110767976,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-COL4A1-3	chr13:110767286-110769562	l_918_chr13:110767285-110770858_testes

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs16975288	0.85[EUR][1000 genomes]
rs16975320	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16975342	0.89[ASN][1000 genomes]
rs2893361	0.81[AFR][1000 genomes]
rs4771659	0.84[AFR][1000 genomes]
rs58737693	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58782431	1.00[ASN][1000 genomes]
rs7319411	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73622485	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9588096	1.00[ASN][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	nsv901006	chr13:110748857-110806490	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv563099	chr13:110749252-110778894	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv456115	chr13:110756664-110806490	Enhancers Bivalent/Poised TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv563100	chr13:110756664-110806490	Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	nsv1052147	chr13:110765635-110917782	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:110761600-110767800	Weak transcription	Lung	lung
2	chr13:110763000-110772600	Weak transcription	Left Ventricle	heart
3	chr13:110763000-110775400	Weak transcription	HSMMtube	muscle
4	chr13:110765000-110767400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr13:110765000-110767600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr13:110765000-110767600	Enhancers	Muscle Satellite Cultured Cells	--
7	chr13:110765200-110767400	Enhancers	NH-A	brain
8	chr13:110765200-110767600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr13:110765200-110768000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr13:110765200-110768000	Enhancers	HMEC	breast
11	chr13:110765200-110768400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr13:110765200-110768800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr13:110765200-110769400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr13:110765400-110768000	Enhancers	NHDF-Ad	bronchial
15	chr13:110765400-110768400	Enhancers	A549	lung
16	chr13:110765800-110767400	Enhancers	Cortex derived primary cultured neurospheres	brain
17	chr13:110765800-110775800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr13:110766000-110768000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr13:110766200-110772600	Weak transcription	Right Ventricle	heart
20	chr13:110766200-110773000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr13:110766400-110768400	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr13:110766400-110769000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr13:110766600-110768400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr13:110766600-110772600	Weak transcription	GM12878-XiMat	blood
25	chr13:110766600-110775800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr13:110766800-110767600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr13:110767000-110767800	Enhancers	HSMM	muscle
28	chr13:110767000-110774800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr13:110767200-110767400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr13:110767200-110769800	Weak transcription	NHEK	skin
31	chr13:110767200-110770200	Weak transcription	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links