Variant report

Variant	rs28726357
Chromosome Location	chr9:136999237-136999238
allele	A/G
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:8)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:136930118..136934023-chr9:136998387..137002829,10	K562	blood:
2	chr9:136931194..136934944-chr9:136998387..137002829,6	K562	blood:
3	chr9:136999027..137003702-chr9:137026566..137032835,8	MCF-7	breast:
4	chr9:136997943..137000936-chr9:137029556..137031957,3	K562	blood:
5	chr9:136999035..137002778-chr9:137027888..137031331,5	K562	blood:
6	chr9:136282958..136284963-chr9:136998714..137001684,2	K562	blood:
7	chr9:136928987..136935981-chr9:136998799..137005312,16	MCF-7	breast:
8	chr9:136999192..137001560-chr9:137216028..137218729,4	MCF-7	breast:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-BRD3-1	chr9:136999157-136999458	XLOC_007882
2	lnc-BRD3-1	chr9:136999207-137000046	XLOC_007882

No data

Variant related genes	Relation type
ENSG00000221676	Chromatin interaction
ENSG00000169925	Chromatin interaction
ENSG00000148300	Chromatin interaction
ENSG00000186350	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs28401385	0.87[AMR][1000 genomes]
rs28412245	0.87[AMR][1000 genomes]
rs28440102	0.87[AMR][1000 genomes]
rs28442241	0.87[AMR][1000 genomes]
rs28491791	0.87[AMR][1000 genomes]
rs28507057	0.87[AMR][1000 genomes]
rs28510444	0.87[AMR][1000 genomes]
rs28523906	1.00[AMR][1000 genomes]
rs28572025	1.00[AMR][1000 genomes]
rs28578388	0.85[AMR][1000 genomes]
rs28579703	0.87[AMR][1000 genomes]
rs28590546	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs28620240	0.87[AMR][1000 genomes]
rs28626222	1.00[AMR][1000 genomes]
rs28637077	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28637761	1.00[AMR][1000 genomes]
rs28657551	1.00[AMR][1000 genomes]
rs28705689	0.87[AMR][1000 genomes]
rs28758854	0.87[AMR][1000 genomes]
rs28759311	0.87[AMR][1000 genomes]
rs34473303	0.87[AMR][1000 genomes]
rs35387289	0.87[AMR][1000 genomes]
rs35709000	0.87[AMR][1000 genomes]
rs58124205	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58577872	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs58734062	1.00[AMR][1000 genomes]
rs73663023	0.85[AMR][1000 genomes]
rs73663200	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv894138	chr9:136839840-137093168	Strong transcription Genic enhancers Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv825148	chr9:136848471-137025632	Flanking Bivalent TSS/Enh Active TSS Strong transcription Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv1048571	chr9:136872166-137265444	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer 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	50 gene(s)	inside rSNPs	diseases
4	nsv894148	chr9:136874066-137093168	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
5	nsv894151	chr9:136887757-137397609	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
6	nsv6751	chr9:136967475-137007131	Active TSS Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv894155	chr9:136969689-137364866	Active TSS Enhancers Bivalent Enhancer Genic enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	43 gene(s)	inside rSNPs	diseases
8	esv1793302	chr9:136990615-137390602	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	44 gene(s)	inside rSNPs	diseases
9	esv1261185	chr9:136998333-136999270	Flanking Active TSS Weak transcription Enhancers Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:136991000-136999400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr9:136994400-136999400	Weak transcription	Primary B cells from cord blood	blood
3	chr9:136994600-136999400	Weak transcription	Spleen	Spleen
4	chr9:136994600-136999800	Weak transcription	Primary B cells from peripheral blood	blood
5	chr9:136996400-136999400	Weak transcription	Brain Angular Gyrus	brain
6	chr9:136996400-136999600	Weak transcription	Brain Cingulate Gyrus	brain
7	chr9:136996400-136999600	Weak transcription	Colon Smooth Muscle	Colon
8	chr9:136996400-136999600	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr9:136996600-136999400	Weak transcription	Brain Anterior Caudate	brain
10	chr9:136996600-136999400	Weak transcription	Colonic Mucosa	Colon
11	chr9:136996600-136999400	Weak transcription	Placenta	Placenta
12	chr9:136996600-136999600	Weak transcription	Fetal Intestine Small	intestine
13	chr9:136996600-136999600	Weak transcription	A549	lung
14	chr9:136996600-136999800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr9:136996600-136999800	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr9:136996600-136999800	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr9:136996600-136999800	Weak transcription	Small Intestine	intestine
18	chr9:136996800-136999400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr9:136996800-136999400	Weak transcription	Esophagus	oesophagus
20	chr9:136996800-136999400	Weak transcription	Fetal Heart	heart
21	chr9:136996800-136999600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr9:136996800-136999600	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr9:136996800-136999600	Weak transcription	Rectal Smooth Muscle	rectum
24	chr9:136996800-136999800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr9:136996800-136999800	Weak transcription	Left Ventricle	heart
26	chr9:136997000-136999400	Weak transcription	Liver	Liver
27	chr9:136997000-136999400	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr9:136997000-136999400	Weak transcription	Stomach Smooth Muscle	stomach
29	chr9:136997000-136999600	Weak transcription	Fetal Intestine Large	intestine
30	chr9:136997000-136999600	Weak transcription	Ovary	ovary
31	chr9:136997000-136999600	Weak transcription	Right Ventricle	heart
32	chr9:136997000-136999800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr9:136997000-136999800	Weak transcription	Psoas Muscle	Psoas
34	chr9:136997000-136999800	Weak transcription	Right Atrium	heart
35	chr9:136997000-137000000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
36	chr9:136997200-136999400	Weak transcription	HUES6 Cell Line	embryonic stem cell
37	chr9:136997200-136999600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr9:136997200-136999800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
39	chr9:136997400-136999400	Weak transcription	HUES64 Cell Line	embryonic stem cell
40	chr9:136997400-136999600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
41	chr9:136997400-136999600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
42	chr9:136997400-136999800	Weak transcription	HSMM	muscle
43	chr9:136997400-137000000	Weak transcription	H9 Cell Line	embryonic stem cell
44	chr9:136997400-137000000	Weak transcription	HSMMtube	muscle
45	chr9:136997600-136999400	Weak transcription	K562	blood
46	chr9:136997600-136999800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr9:136997800-136999800	Weak transcription	H1 Cell Line	embryonic stem cell
48	chr9:136997800-136999800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
49	chr9:136997800-136999800	Weak transcription	Gastric	stomach
50	chr9:136997800-137000000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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