Variant report

Variant	rs16969508
Chromosome Location	chr15:78406192-78406193
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:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:78405195..78406276-chr15:78487287..78488630,12	K562	blood:
2	chr15:78405315..78406539-chr15:78533006..78535187,14	MCF-7	breast:
3	chr15:78405675..78406204-chr15:78469550..78470386,3	MCF-7	breast:
4	chr15:78404966..78407239-chr15:78487303..78489850,2	MCF-7	breast:
5	chr15:78405253..78406238-chr15:78532986..78534064,5	K562	blood:
6	chr15:78403982..78406410-chr15:78531457..78533698,3	MCF-7	breast:
7	chr15:78405277..78406290-chr15:78487151..78488696,13	MCF-7	breast:
8	chr15:78404287..78406239-chr15:78590590..78593267,2	MCF-7	breast:
9	chr15:78405740..78406240-chr15:78472993..78473626,2	K562	blood:
10	chr15:78405703..78406239-chr15:79043526..79044041,2	K562	blood:
11	chr15:78405471..78408380-chr15:78587851..78589863,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000103740	Chromatin interaction
ENSG00000140395	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11072728	0.93[CHB][hapmap];0.91[CHD][hapmap]
rs11072729	0.93[CHB][hapmap];0.86[CHD][hapmap]
rs11639461	0.95[ASN][1000 genomes]
rs12442037	1.00[CEU][hapmap]
rs1542100	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16969507	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16969514	1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[JPT][hapmap];0.92[ASN][1000 genomes]
rs16969548	1.00[CEU][hapmap]
rs1971151	0.92[CHB][hapmap];0.85[JPT][hapmap];0.91[ASN][1000 genomes]
rs2271901	1.00[CEU][hapmap]
rs2304823	1.00[CEU][hapmap]
rs2304827	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2304828	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2304829	0.81[ASN][1000 genomes]
rs2867922	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs3784328	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3784330	0.91[ASN][1000 genomes]
rs60121404	0.93[AMR][1000 genomes]
rs62009267	0.95[ASN][1000 genomes]
rs7161765	0.92[ASN][1000 genomes]
rs7164338	0.93[CHB][hapmap];0.81[ASN][1000 genomes]
rs72732564	0.95[ASN][1000 genomes]
rs7359294	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8032449	0.93[CHB][hapmap];0.82[ASN][1000 genomes]
rs8036417	0.92[CHB][hapmap];1.00[CHD][hapmap];0.85[JPT][hapmap];0.91[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:35 , 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	chr15:78398600-78413200	Weak transcription	Spleen	Spleen
6	chr15:78398800-78406200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr15:78400000-78412800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr15:78400000-78422400	Weak transcription	Brain Germinal Matrix	brain
9	chr15:78400200-78414600	Weak transcription	Fetal Brain Female	brain
10	chr15:78401400-78413000	Weak transcription	Fetal Stomach	stomach
11	chr15:78401400-78414400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr15:78402600-78406200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr15:78403800-78412200	Weak transcription	Thymus	Thymus
14	chr15:78405400-78406400	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr15:78405400-78406400	Enhancers	H1 Cell Line	embryonic stem cell
16	chr15:78405400-78406400	Enhancers	Duodenum Mucosa	Duodenum
17	chr15:78405600-78406200	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr15:78405600-78406200	Weak transcription	Primary B cells from peripheral blood	blood
19	chr15:78405600-78412800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr15:78405600-78413000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr15:78405600-78421400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr15:78406000-78406200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr15:78406000-78406200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr15:78406000-78406200	Enhancers	Fetal Thymus	thymus
25	chr15:78406000-78406400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr15:78406000-78406400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr15:78406000-78406400	Enhancers	HUES6 Cell Line	embryonic stem cell
28	chr15:78406000-78406400	Enhancers	iPS-15b Cell Line	embryonic stem cell
29	chr15:78406000-78406400	Enhancers	iPS-18 Cell Line	embryonic stem cell
30	chr15:78406000-78406400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr15:78406000-78407400	Weak transcription	Brain Anterior Caudate	brain
32	chr15:78406000-78412200	Weak transcription	Fetal Intestine Small	intestine
33	chr15:78406000-78414200	Weak transcription	Fetal Intestine Large	intestine
34	chr15:78406000-78421600	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr15:78406000-78423000	Weak transcription	Stomach Smooth Muscle	stomach

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