Variant report

Variant	rs1519049
Chromosome Location	chr9:109991942-109991943
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:109991080..109992834-chr9:110102053..110103611,2	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10119641	0.85[JPT][hapmap]
rs10816473	0.81[AMR][1000 genomes]
rs10816474	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10816477	0.86[AMR][1000 genomes]
rs10978767	0.94[CEU][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10978769	0.90[JPT][hapmap]
rs10978775	0.85[JPT][hapmap];0.82[AMR][1000 genomes]
rs12342066	0.82[AMR][1000 genomes]
rs12345455	0.85[JPT][hapmap]
rs1519050	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2808362	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2808363	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2808365	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7041137	0.80[JPT][hapmap]
rs7867544	0.94[CEU][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs942291	0.85[JPT][hapmap]
rs9969728	0.85[JPT][hapmap]

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	nsv869351	chr9:109593212-110191170	Active TSS Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv530948	chr9:109760752-110413602	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv831682	chr9:109937181-110075453	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:109989600-109992000	Enhancers	Fetal Intestine Small	intestine
2	chr9:109989600-109992000	Enhancers	Fetal Lung	lung
3	chr9:109989600-109992200	Enhancers	Fetal Stomach	stomach
4	chr9:109990000-109992000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr9:109990000-109993600	Weak transcription	Psoas Muscle	Psoas
6	chr9:109990200-109992000	Enhancers	Fetal Brain Female	brain
7	chr9:109990400-109992200	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr9:109990600-109992000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr9:109990600-109992000	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr9:109990600-109992200	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr9:109990600-109992200	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr9:109990600-109992400	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr9:109990600-109992400	Enhancers	Cortex derived primary cultured neurospheres	brain
14	chr9:109990600-109992600	Enhancers	Fetal Brain Male	brain
15	chr9:109990600-109997400	Weak transcription	Liver	Liver
16	chr9:109990800-109992000	Enhancers	H1 Cell Line	embryonic stem cell
17	chr9:109990800-109992000	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr9:109990800-109992000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
19	chr9:109991400-109992000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr9:109991400-109992000	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr9:109991400-109992000	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr9:109991400-109992000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr9:109991400-109992000	Enhancers	Colon Smooth Muscle	Colon
24	chr9:109991600-109992000	Enhancers	Stomach Smooth Muscle	stomach
25	chr9:109991600-109992400	Weak transcription	Esophagus	oesophagus
26	chr9:109991600-109992600	Weak transcription	Fetal Muscle Leg	muscle

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