Variant report

Variant	rs16969520
Chromosome Location	chr15:78417184-78417185
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:78414752..78417603-chr15:78438939..78440752,2	MCF-7	breast:
2	chr15:78411897..78414828-chr15:78414892..78418172,3	MCF-7	breast:
3	chr15:78415469..78417460-chr15:78422218..78423936,2	K562	blood:
4	chr15:78415578..78418326-chr15:78419099..78421410,2	MCF-7	breast:
5	chr15:78415611..78418192-chr15:78420820..78424319,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136425	Chromatin interaction
ENSG00000166411	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11857947	1.00[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1542101	0.89[CHB][hapmap];0.94[CHD][hapmap];0.87[ASN][1000 genomes]
rs2007540	0.85[CHB][hapmap];0.95[JPT][hapmap]
rs2289524	0.85[CEU][hapmap];0.83[CHD][hapmap];0.80[ASN][1000 genomes]
rs2903700	0.80[ASN][1000 genomes]
rs3784327	0.95[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];0.87[TSI][hapmap];0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3784331	1.00[CHB][hapmap];0.94[CHD][hapmap];0.90[JPT][hapmap];0.96[ASN][1000 genomes]
rs6495274	0.80[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8040395	0.99[ASN][1000 genomes]
rs9783722	0.82[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529491	chr15:77932659-78751516	Genic enhancers Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:78396200-78421800	Weak transcription	Right Ventricle	heart
2	chr15:78396600-78423800	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr15:78397600-78421400	Weak transcription	Fetal Muscle Leg	muscle
4	chr15:78398400-78423200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr15:78400000-78422400	Weak transcription	Brain Germinal Matrix	brain
6	chr15:78405600-78421400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr15:78406000-78421600	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr15:78406000-78423000	Weak transcription	Stomach Smooth Muscle	stomach
9	chr15:78406400-78420000	Weak transcription	Duodenum Mucosa	Duodenum
10	chr15:78406400-78423000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr15:78409000-78423000	Weak transcription	Brain Anterior Caudate	brain
12	chr15:78412200-78417200	Strong transcription	Thymus	Thymus
13	chr15:78412200-78419200	Strong transcription	Fetal Intestine Small	intestine
14	chr15:78413000-78417800	Strong transcription	Fetal Stomach	stomach
15	chr15:78413600-78421400	Weak transcription	Right Atrium	heart
16	chr15:78413800-78421200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr15:78413800-78421200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr15:78413800-78421200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr15:78413800-78422600	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr15:78413800-78422600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr15:78414200-78417800	Strong transcription	Fetal Intestine Large	intestine
22	chr15:78415200-78423000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr15:78415800-78417200	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr15:78415800-78421600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr15:78416000-78417800	Weak transcription	Fetal Thymus	thymus
26	chr15:78416000-78421400	Weak transcription	Fetal Brain Female	brain
27	chr15:78416800-78417200	Enhancers	Adipose Nuclei	Adipose

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