Variant report

Variant	rs28716590
Chromosome Location	chr9:97431400-97431401
allele	C/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:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:97430826..97431807-chr9:97889562..97890595,6	MCF-7	breast:
2	chr19:3562354..3563014-chr9:97431251..97431861,2	Hela-S3	cervix:
3	chr9:97430208..97431715-chr9:97447673..97449794,2	K562	blood:
4	chr9:97429455..97432158-chr9:97487804..97490405,2	MCF-7	breast:
5	chr9:97316595..97318238-chr9:97430953..97432955,2	MCF-7	breast:
6	chr9:97430886..97431741-chr9:97889631..97890543,3	MCF-7	breast:
7	chr9:97314858..97318138-chr9:97429775..97431478,3	MCF-7	breast:
8	chr9:97426120..97427980-chr9:97431313..97433005,2	MCF-7	breast:
9	chr9:97430687..97431497-chr9:97893326..97894285,4	MCF-7	breast:
10	chr9:97400839..97403721-chr9:97429734..97432709,4	MCF-7	breast:
11	chr9:97413279..97414957-chr9:97431103..97432914,2	MCF-7	breast:
12	chr9:97431172..97431716-chr9:97541009..97541526,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000158169	Chromatin interaction
ENSG00000148120	Chromatin interaction
ENSG00000231806	Chromatin interaction
ENSG00000165140	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10081722	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10114789	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10114975	1.00[EUR][1000 genomes]
rs10115113	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10115614	1.00[EUR][1000 genomes]
rs10116221	1.00[EUR][1000 genomes]
rs10119797	1.00[EUR][1000 genomes]
rs10120534	1.00[EUR][1000 genomes]
rs10121232	1.00[EUR][1000 genomes]
rs10121468	1.00[EUR][1000 genomes]
rs10123136	1.00[EUR][1000 genomes]
rs10123264	1.00[EUR][1000 genomes]
rs10124037	1.00[EUR][1000 genomes]
rs10125337	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10993308	1.00[EUR][1000 genomes]
rs10993321	1.00[EUR][1000 genomes]
rs12335651	1.00[EUR][1000 genomes]
rs12337079	1.00[EUR][1000 genomes]
rs12344661	1.00[EUR][1000 genomes]
rs28369680	1.00[EUR][1000 genomes]
rs28552494	1.00[EUR][1000 genomes]
rs28634854	1.00[EUR][1000 genomes]
rs28833170	1.00[EUR][1000 genomes]
rs58782985	1.00[EUR][1000 genomes]
rs6479567	1.00[EUR][1000 genomes]
rs7018945	1.00[EUR][1000 genomes]
rs7022423	1.00[EUR][1000 genomes]
rs7033300	1.00[EUR][1000 genomes]
rs7036063	1.00[EUR][1000 genomes]
rs7041122	1.00[EUR][1000 genomes]
rs7046521	1.00[EUR][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	nsv893596	chr9:97321172-97598966	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
2	nsv893597	chr9:97380597-97463435	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97424600-97431400	Enhancers	Fetal Intestine Large	intestine
2	chr9:97424600-97431400	Enhancers	Fetal Intestine Small	intestine
3	chr9:97428000-97431400	Weak transcription	HSMM	muscle
4	chr9:97429400-97431400	Weak transcription	Pancreas	Pancrea
5	chr9:97429400-97436000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr9:97430600-97431400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr9:97430800-97431600	Enhancers	Fetal Kidney	kidney
8	chr9:97430800-97431800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr9:97430800-97431800	Enhancers	Placenta Amnion	Placenta Amnion
10	chr9:97430800-97432000	Active TSS	Primary T killer memory cells from peripheral blood	blood
11	chr9:97431000-97431400	Enhancers	Placenta	Placenta
12	chr9:97431000-97431400	Enhancers	HMEC	breast
13	chr9:97431000-97431400	Weak transcription	HSMMtube	muscle
14	chr9:97431000-97431600	Enhancers	Muscle Satellite Cultured Cells	--
15	chr9:97431000-97431600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr9:97431000-97431800	Active TSS	Primary B cells from cord blood	blood
17	chr9:97431000-97431800	Flanking Active TSS	Liver	Liver
18	chr9:97431000-97431800	Enhancers	NH-A	brain
19	chr9:97431000-97432000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
20	chr9:97431000-97432000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr9:97431200-97431400	Active TSS	Primary B cells from peripheral blood	blood
22	chr9:97431200-97431400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
23	chr9:97431200-97431400	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
24	chr9:97431200-97431400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
25	chr9:97431200-97431400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
26	chr9:97431200-97431400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
27	chr9:97431200-97431400	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
28	chr9:97431200-97431400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr9:97431200-97431400	Enhancers	Brain Cingulate Gyrus	brain
30	chr9:97431200-97431400	Active TSS	Colonic Mucosa	Colon
31	chr9:97431200-97431400	Enhancers	Fetal Lung	lung
32	chr9:97431200-97431400	Active TSS	HepG2	liver
33	chr9:97431200-97431400	Active TSS	HUVEC	blood vessel
34	chr9:97431200-97431400	Enhancers	Osteobl	bone
35	chr9:97431200-97431600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
36	chr9:97431200-97431600	Flanking Active TSS	Brain Anterior Caudate	brain
37	chr9:97431200-97431600	Active TSS	Duodenum Smooth Muscle	Duodenum
38	chr9:97431200-97431800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
39	chr9:97431200-97431800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr9:97431200-97431800	Flanking Active TSS	Adipose Nuclei	Adipose
41	chr9:97431200-97431800	Flanking Active TSS	Duodenum Mucosa	Duodenum
42	chr9:97431200-97431800	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
43	chr9:97431200-97431800	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
44	chr9:97431200-97431800	Active TSS	Stomach Smooth Muscle	stomach
45	chr9:97431200-97431800	Flanking Active TSS	Dnd41	blood
46	chr9:97431200-97431800	Active TSS	GM12878-XiMat	blood
47	chr9:97431200-97431800	Flanking Active TSS	Hela-S3	cervix
48	chr9:97431200-97431800	Flanking Active TSS	NHEK	skin
49	chr9:97431200-97431800	Active TSS	NHLF	lung
50	chr9:97431200-97432000	Flanking Active TSS	Primary monocytes fromperipheralblood	blood

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