Variant report

Variant	rs8029046
Chromosome Location	chr15:39109845-39109846
allele	C/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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:38999832..39000780-chr15:39109707..39110440,2	MCF-7	breast:
2	chr15:39109788..39110560-chr15:39464020..39464923,3	K562	blood:
3	chr15:39109578..39110474-chr15:39145706..39146406,3	MCF-7	breast:
4	chr15:39060876..39061871-chr15:39109578..39110390,2	MCF-7	breast:
5	chr15:39109626..39110574-chr15:39283075..39284008,7	MCF-7	breast:
6	chr15:39109642..39110205-chr15:39156134..39156758,2	MCF-7	breast:
7	chr15:39108039..39110943-chr15:39463087..39465051,2	MCF-7	breast:
8	chr15:39109782..39110594-chr15:39145267..39146966,11	MCF-7	breast:
9	chr15:39109610..39110793-chr15:39283014..39284012,10	MCF-7	breast:
10	chr15:38999758..39000677-chr15:39109720..39110502,3	K562	blood:

No data

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1004451	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1004864	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10459670	0.88[CEU][hapmap]
rs10520107	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10520111	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11630569	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11631203	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11632268	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11635756	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11636712	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12372928	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12915426	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12916389	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17117	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2059593	0.82[EUR][1000 genomes]
rs4429264	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4602012	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8023903	0.83[ASN][1000 genomes]
rs8040011	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8040794	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8040905	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8041441	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8042816	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046994	chr15:38806163-39239014	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv832975	chr15:39011915-39227590	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1054810	chr15:39019900-39578526	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv542359	chr15:39019900-39578526	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv904087	chr15:39065424-39117186	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv510659	chr15:39072035-39148591	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv904088	chr15:39081717-39117186	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv904089	chr15:39104689-39117186	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39107400-39110600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr15:39109000-39110800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr15:39109200-39110400	Enhancers	Fetal Kidney	kidney
4	chr15:39109400-39110800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr15:39109400-39111000	Enhancers	GM12878-XiMat	blood
6	chr15:39109400-39111000	Enhancers	HSMM	muscle
7	chr15:39109600-39110000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr15:39109600-39110000	Enhancers	Hela-S3	cervix
9	chr15:39109600-39110200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr15:39109600-39110400	Enhancers	HMEC	breast
11	chr15:39109600-39110600	Enhancers	Muscle Satellite Cultured Cells	--
12	chr15:39109600-39110600	Enhancers	A549	lung
13	chr15:39109600-39110600	Enhancers	NH-A	brain
14	chr15:39109600-39110600	Enhancers	Osteobl	bone
15	chr15:39109600-39111200	Enhancers	Fetal Heart	heart
16	chr15:39109600-39111800	Enhancers	Fetal Stomach	stomach
17	chr15:39109800-39110000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr15:39109800-39110000	Enhancers	Adipose Nuclei	Adipose
19	chr15:39109800-39110400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
20	chr15:39109800-39110400	Enhancers	Fetal Intestine Large	intestine
21	chr15:39109800-39110400	Enhancers	NHLF	lung
22	chr15:39109800-39110600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr15:39109800-39110600	Enhancers	NHEK	skin
24	chr15:39109800-39110800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr15:39109800-39110800	Enhancers	HUVEC	blood vessel
26	chr15:39109800-39110800	Enhancers	NHDF-Ad	bronchial
27	chr15:39109800-39111200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr15:39109800-39112600	Enhancers	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links