Variant report

Variant	rs9892747
Chromosome Location	chr17:59783876-59783877
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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr17:59692156..59693682-chr17:59783711..59786408,2	MCF-7	breast:
2	chr17:59782996..59784712-chr17:60501285..60504162,2	MCF-7	breast:
3	chr17:59782208..59785864-chr17:59818424..59822592,3	MCF-7	breast:
4	chr17:59488477..59493840-chr17:59781559..59787606,7	MCF-7	breast:
5	chr17:59738713..59740616-chr17:59781704..59784682,2	MCF-7	breast:
6	chr17:59782329..59785293-chr17:59799668..59801458,2	MCF-7	breast:
7	chr14:74229969..74231643-chr17:59782335..59785227,2	MCF-7	breast:
8	chr17:59780675..59785135-chr17:59787206..59790127,5	MCF-7	breast:
9	chr17:59775949..59780769-chr17:59781104..59786917,12	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000267280	Chromatin interaction
ENSG00000187013	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs11079449	1.00[AMR][1000 genomes]
rs11079450	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16945451	1.00[AMR][1000 genomes]
rs16945455	1.00[AMR][1000 genomes]
rs16945466	1.00[AMR][1000 genomes]
rs16945472	1.00[AMR][1000 genomes]
rs16945489	1.00[AMR][1000 genomes]
rs16945495	1.00[AMR][1000 genomes]
rs16945522	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2378882	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28409395	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28637035	1.00[AMR][1000 genomes]
rs28839618	1.00[AMR][1000 genomes]
rs59115933	0.96[AFR][1000 genomes]
rs60066089	1.00[AMR][1000 genomes]
rs61739271	1.00[AMR][1000 genomes]
rs7207425	1.00[AMR][1000 genomes]
rs7212939	0.92[AFR][1000 genomes]
rs7212941	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7213607	1.00[AMR][1000 genomes]
rs7213652	1.00[AMR][1000 genomes]
rs7219055	1.00[AMR][1000 genomes]
rs7223319	1.00[AMR][1000 genomes]
rs7225251	1.00[AMR][1000 genomes]
rs8067024	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8077553	0.96[AFR][1000 genomes]
rs9303447	1.00[AMR][1000 genomes]
rs9892156	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9893569	1.00[AMR][1000 genomes]
rs9894800	1.00[AMR][1000 genomes]
rs9896244	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9897645	1.00[AMR][1000 genomes]
rs9897967	1.00[AMR][1000 genomes]
rs9897971	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9898853	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9899420	1.00[AMR][1000 genomes]
rs9901535	1.00[AMR][1000 genomes]
rs9901665	1.00[AMR][1000 genomes]
rs9902352	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9902447	1.00[AMR][1000 genomes]
rs9903376	1.00[AMR][1000 genomes]
rs9904939	0.93[AFR][1000 genomes]
rs9909664	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9910311	1.00[AMR][1000 genomes]
rs9910461	1.00[AMR][1000 genomes]
rs9910726	1.00[AMR][1000 genomes]
rs9911403	1.00[AMR][1000 genomes]
rs9912137	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9912417	1.00[AMR][1000 genomes]
rs9916169	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3378293	chr17:59744117-60124899	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	175 gene(s)	inside rSNPs	diseases
2	nsv908673	chr17:59767501-59926645	Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	94 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:59763400-59792800	Weak transcription	NH-A	brain
2	chr17:59766000-59819000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr17:59767600-59792800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr17:59767600-59793200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr17:59771800-59794600	Weak transcription	HSMM	muscle
6	chr17:59777400-59785600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr17:59778200-59805800	Weak transcription	Thymus	Thymus
8	chr17:59779000-59785000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr17:59779200-59785600	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr17:59779400-59790000	Weak transcription	HepG2	liver
11	chr17:59780000-59793400	Weak transcription	Fetal Heart	heart
12	chr17:59780200-59785600	Weak transcription	Dnd41	blood
13	chr17:59780400-59785600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr17:59780400-59791000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr17:59780800-59785200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr17:59780800-59785600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr17:59780800-59793000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr17:59781000-59791800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr17:59781600-59835400	Weak transcription	Hela-S3	cervix
20	chr17:59782400-59784800	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr17:59782400-59785400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr17:59782800-59785800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr17:59782800-59793200	Weak transcription	Fetal Lung	lung
24	chr17:59783000-59793600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr17:59783200-59785600	Weak transcription	Primary hematopoietic stem cells	blood
26	chr17:59783200-59790200	Weak transcription	A549	lung
27	chr17:59783400-59786200	Weak transcription	Primary neutrophils fromperipheralblood	blood
28	chr17:59783400-59793200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr17:59783600-59787800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr17:59783800-59793600	Weak transcription	Fetal Intestine Large	intestine

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