Variant report

Variant	rs6499604
Chromosome Location	chr16:73032465-73032466
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	chr16:73032236..73034528-chr16:73099070..73100883,2	MCF-7	breast:
2	chr16:73028886..73036567-chr16:73043066..73055500,18	MCF-7	breast:
3	chr16:73031109..73034077-chr16:73048729..73050269,2	MCF-7	breast:
4	chr16:72866647..72870227-chr16:73029377..73032600,4	MCF-7	breast:
5	chr16:73031141..73033468-chr16:73045521..73048200,2	MCF-7	breast:
6	chr16:73028923..73036951-chr16:73080210..73093920,29	MCF-7	breast:
7	chr16:72856101..72858857-chr16:73031891..73033903,2	MCF-7	breast:
8	chr16:72982797..72988288-chr16:73028963..73032993,7	MCF-7	breast:
9	chr16:73029969..73032717-chr16:73066881..73070752,3	MCF-7	breast:
10	chr16:72970732..72973105-chr16:73032321..73034981,2	MCF-7	breast:
11	chr16:73027345..73035402-chr16:73051107..73057309,10	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000272330	Chromatin interaction
ENSG00000140836	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11075959	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs11860416	1.00[CEU][hapmap];0.89[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12373097	0.86[JPT][hapmap]
rs28688024	1.00[EUR][1000 genomes]
rs55989215	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs58876449	0.93[ASN][1000 genomes]
rs6416746	0.83[CHB][hapmap];0.87[CHD][hapmap];0.86[JPT][hapmap]
rs6499605	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7203164	1.00[EUR][1000 genomes]
rs73594757	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs74030209	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs74030210	1.00[EUR][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	nsv906898	chr16:73017684-73128146	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:73019000-73035200	Enhancers	Placenta	Placenta
2	chr16:73023200-73034800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr16:73023800-73033600	Weak transcription	Brain Angular Gyrus	brain
4	chr16:73023800-73035000	Enhancers	Psoas Muscle	Psoas
5	chr16:73024200-73035000	Enhancers	Placenta Amnion	Placenta Amnion
6	chr16:73024400-73033400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr16:73026400-73034800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr16:73026600-73032800	Weak transcription	Fetal Stomach	stomach
9	chr16:73027000-73033400	Weak transcription	Brain Anterior Caudate	brain
10	chr16:73027400-73033400	Weak transcription	Brain Cingulate Gyrus	brain
11	chr16:73027400-73034600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr16:73027600-73033600	Weak transcription	Brain Germinal Matrix	brain
13	chr16:73027800-73033400	Weak transcription	Brain Hippocampus Middle	brain
14	chr16:73027800-73033600	Weak transcription	Fetal Heart	heart
15	chr16:73028000-73033400	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr16:73028600-73033800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr16:73029000-73033000	Enhancers	Primary monocytes fromperipheralblood	blood
18	chr16:73029200-73032600	Enhancers	Lung	lung
19	chr16:73029600-73033400	Weak transcription	Brain Substantia Nigra	brain
20	chr16:73029600-73033800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr16:73029800-73033600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr16:73029800-73033600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr16:73029800-73034000	Weak transcription	Aorta	Aorta
24	chr16:73030000-73033600	Weak transcription	Spleen	Spleen
25	chr16:73030200-73033400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr16:73030400-73033600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr16:73030400-73033600	Enhancers	Adipose Nuclei	Adipose
28	chr16:73031000-73033400	Enhancers	HepG2	liver
29	chr16:73031000-73033600	Weak transcription	Right Ventricle	heart
30	chr16:73031000-73033800	Weak transcription	Colon Smooth Muscle	Colon
31	chr16:73031000-73033800	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr16:73031200-73032800	Weak transcription	HSMMtube	muscle
33	chr16:73031200-73033400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr16:73031200-73033400	Weak transcription	Stomach Mucosa	stomach
35	chr16:73031200-73033600	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr16:73031200-73033800	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr16:73031200-73034000	Weak transcription	Colonic Mucosa	Colon
38	chr16:73031200-73034600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr16:73031400-73032800	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr16:73031400-73033000	Weak transcription	Left Ventricle	heart
41	chr16:73031400-73033200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
42	chr16:73031400-73033400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr16:73031400-73033400	Weak transcription	Duodenum Mucosa	Duodenum
44	chr16:73031400-73033400	Weak transcription	Right Atrium	heart
45	chr16:73031400-73033400	Weak transcription	HSMM	muscle
46	chr16:73031400-73033600	Weak transcription	Rectal Mucosa Donor 31	rectum
47	chr16:73031600-73032800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr16:73031600-73032800	Enhancers	Monocytes-CD14+_RO01746	blood
49	chr16:73031600-73033400	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr16:73031600-73033400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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