Variant report

Variant	rs28556819
Chromosome Location	chr9:116122602-116122603
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:116122597..116124839-chr9:116128759..116130936,3	MCF-7	breast:
2	chr9:116110132..116116489-chr9:116119507..116125005,8	MCF-7	breast:
3	chr9:116116084..116117603-chr9:116121725..116123605,2	MCF-7	breast:
4	chr9:116122073..116125346-chr9:116133766..116136866,3	MCF-7	breast:
5	chr9:116116293..116119291-chr9:116122385..116124255,2	K562	blood:

Variant related genes	Relation type
ENSG00000119411	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10114352	0.85[AMR][1000 genomes]
rs10118304	0.85[AMR][1000 genomes]
rs10120336	0.85[AMR][1000 genomes]
rs10122035	0.85[AMR][1000 genomes]
rs10481672	0.85[AMR][1000 genomes]
rs10481673	0.85[AMR][1000 genomes]
rs10481675	0.85[AMR][1000 genomes]
rs10981753	0.85[AMR][1000 genomes]
rs12347798	0.85[AMR][1000 genomes]
rs12350332	0.85[AMR][1000 genomes]
rs12350377	0.85[AMR][1000 genomes]
rs12352852	0.85[AMR][1000 genomes]
rs12352895	0.85[AMR][1000 genomes]
rs28375224	0.85[AMR][1000 genomes]
rs28393902	0.85[AMR][1000 genomes]
rs28488898	0.85[AMR][1000 genomes]
rs28536744	0.85[AMR][1000 genomes]
rs28597401	0.85[AMR][1000 genomes]
rs28725394	0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530949	chr9:115821128-116487796	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv1042663	chr9:115920158-116167140	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	nsv893744	chr9:115934852-116170227	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
4	nsv519849	chr9:116111407-116144973	Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv1036586	chr9:116118902-116136993	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116112800-116122800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr9:116113000-116135600	Weak transcription	Colonic Mucosa	Colon
3	chr9:116113000-116138000	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr9:116113400-116135200	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr9:116113800-116137800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr9:116114000-116127400	Weak transcription	Monocytes-CD14+_RO01746	blood
7	chr9:116114200-116136400	Weak transcription	Primary B cells from cord blood	blood
8	chr9:116115400-116123400	Weak transcription	Stomach Mucosa	stomach
9	chr9:116115400-116135000	Weak transcription	Esophagus	oesophagus
10	chr9:116115600-116132800	Weak transcription	Fetal Intestine Large	intestine
11	chr9:116115800-116125800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr9:116116400-116137000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr9:116116600-116126400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr9:116117800-116124000	Weak transcription	Duodenum Mucosa	Duodenum
15	chr9:116120200-116126400	Strong transcription	Fetal Intestine Small	intestine
16	chr9:116120200-116131800	Weak transcription	Lung	lung
17	chr9:116120400-116127200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr9:116121000-116124800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
19	chr9:116121600-116126400	Strong transcription	Primary hematopoietic stem cells	blood
20	chr9:116121800-116124400	Enhancers	Pancreas	Pancrea
21	chr9:116122000-116122800	Weak transcription	Gastric	stomach
22	chr9:116122200-116124000	Strong transcription	Sigmoid Colon	Sigmoid Colon
23	chr9:116122400-116123200	Strong transcription	Rectal Mucosa Donor 31	rectum
24	chr9:116122400-116124000	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr9:116122600-116124800	Enhancers	Brain Anterior Caudate	brain

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