Variant report

Variant	rs9889054
Chromosome Location	chr16:72898864-72898865
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:5)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr16:72898058..72899947-chr16:72905032..72907233,2	MCF-7	breast:
2	chr16:72893709..72896172-chr16:72897326..72901024,3	MCF-7	breast:
3	chr16:72897681..72899604-chr16:72909159..72912052,2	MCF-7	breast:
4	chr16:72896689..72899470-chr16:72907031..72908820,2	MCF-7	breast:
5	chr16:72893172..72894972-chr16:72898308..72901387,3	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C16orf47-3	chr16:72897138-72899169	ncRnaDb_ncrna_FR305685_1

No data

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs12445722	0.88[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs12445743	1.00[CHB][hapmap]
rs16971335	0.88[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs16971338	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs16971373	1.00[TSI][hapmap]
rs16971547	1.00[TSI][hapmap]
rs4461079	0.88[CHB][hapmap];0.92[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4788665	0.81[GIH][hapmap]
rs60056526	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7184235	1.00[JPT][hapmap]
rs7190473	0.88[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];0.89[ASN][1000 genomes]
rs7193479	0.96[ASN][1000 genomes]
rs7193704	1.00[TSI][hapmap]
rs7195234	1.00[TSI][hapmap]
rs7197411	0.88[CHB][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7201079	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7204991	0.87[ASN][1000 genomes]
rs8043976	1.00[TSI][hapmap]
rs8050587	0.88[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs9888808	1.00[ASW][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9936586	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];1.00[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	nsv572959	chr16:72890216-72923327	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:72883200-72899200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr16:72883200-72909200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr16:72883400-72908400	Weak transcription	Fetal Intestine Large	intestine
4	chr16:72883400-72918800	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr16:72883600-72912200	Weak transcription	Ovary	ovary
6	chr16:72883800-72908800	Weak transcription	Hela-S3	cervix
7	chr16:72884200-72899200	Weak transcription	Liver	Liver
8	chr16:72884200-72902200	Weak transcription	Right Ventricle	heart
9	chr16:72884200-72911600	Weak transcription	Gastric	stomach
10	chr16:72885200-72909000	Weak transcription	Lung	lung
11	chr16:72889200-72902400	Weak transcription	Spleen	Spleen
12	chr16:72889200-72908800	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr16:72890400-72899000	Weak transcription	Aorta	Aorta
14	chr16:72891400-72908400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr16:72891800-72899200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr16:72892600-72900000	Weak transcription	Brain Angular Gyrus	brain
17	chr16:72893000-72899200	Weak transcription	Left Ventricle	heart
18	chr16:72893000-72904000	Weak transcription	Pancreas	Pancrea
19	chr16:72893000-72909600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr16:72893200-72900600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr16:72893200-72911400	Weak transcription	Stomach Mucosa	stomach
22	chr16:72893400-72909000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr16:72893600-72902600	Weak transcription	Adipose Nuclei	Adipose
24	chr16:72893600-72909000	Weak transcription	Colon Smooth Muscle	Colon
25	chr16:72893600-72909400	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr16:72893800-72899800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr16:72893800-72900000	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr16:72893800-72907000	Weak transcription	Fetal Kidney	kidney
29	chr16:72893800-72909200	Weak transcription	Rectal Smooth Muscle	rectum
30	chr16:72894000-72899400	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr16:72894200-72900400	Weak transcription	NHDF-Ad	bronchial
32	chr16:72894200-72906800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr16:72894200-72906800	Weak transcription	HSMMtube	muscle
34	chr16:72894400-72909200	Weak transcription	Fetal Lung	lung
35	chr16:72895000-72906800	Weak transcription	NHLF	lung
36	chr16:72895200-72901000	Weak transcription	Brain Hippocampus Middle	brain
37	chr16:72895200-72908200	Weak transcription	Esophagus	oesophagus
38	chr16:72895200-72918000	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr16:72895400-72899000	Weak transcription	Fetal Muscle Trunk	muscle
40	chr16:72895400-72908400	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr16:72895400-72909200	Weak transcription	Psoas Muscle	Psoas
42	chr16:72895400-72909200	Weak transcription	Right Atrium	heart
43	chr16:72896000-72908400	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr16:72896200-72899200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr16:72896200-72908600	Weak transcription	Placenta Amnion	Placenta Amnion
46	chr16:72896600-72909200	Weak transcription	Duodenum Mucosa	Duodenum
47	chr16:72897000-72899200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr16:72897400-72909000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr16:72897600-72899600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr16:72898200-72899600	Strong transcription	A549	lung

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