Variant report

Variant	rs28382861
Chromosome Location	chr9:97401123-97401124
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:96927010..96929542-chr9:97400485..97402088,2	MCF-7	breast:
2	chr9:97315630..97317501-chr9:97398483..97401293,2	MCF-7	breast:
3	chr9:97399286..97401961-chr9:97487355..97490023,2	MCF-7	breast:
4	chr9:97393498..97394166-chr9:97401048..97401667,2	MCF-7	breast:
5	chr9:97399443..97401665-chr9:97771079..97774076,2	MCF-7	breast:
6	chr9:97316754..97318987-chr9:97400777..97403144,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000231806	Chromatin interaction
ENSG00000269946	Chromatin interaction
ENSG00000148120	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10993250	1.00[EUR][1000 genomes]
rs10993279	0.92[AFR][1000 genomes]
rs12000108	1.00[EUR][1000 genomes]
rs12000176	1.00[EUR][1000 genomes]
rs12000612	1.00[EUR][1000 genomes]
rs12002008	1.00[EUR][1000 genomes]
rs12002713	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12005954	1.00[EUR][1000 genomes]
rs12006551	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12115356	1.00[EUR][1000 genomes]
rs2149721	1.00[EUR][1000 genomes]
rs28369686	1.00[EUR][1000 genomes]
rs28369687	1.00[EUR][1000 genomes]
rs28369690	1.00[EUR][1000 genomes]
rs28382862	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28402369	1.00[EUR][1000 genomes]
rs28402375	1.00[EUR][1000 genomes]
rs3864789	1.00[EUR][1000 genomes]
rs3864790	1.00[EUR][1000 genomes]
rs5018586	1.00[EUR][1000 genomes]
rs56852311	1.00[EUR][1000 genomes]
rs57746346	1.00[EUR][1000 genomes]
rs59268947	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs59707858	1.00[EUR][1000 genomes]
rs60065676	1.00[EUR][1000 genomes]
rs61032874	1.00[EUR][1000 genomes]
rs61465993	1.00[EUR][1000 genomes]
rs7023425	1.00[EUR][1000 genomes]
rs7034833	1.00[EUR][1000 genomes]
rs7036264	1.00[EUR][1000 genomes]
rs7044193	1.00[EUR][1000 genomes]
rs7851510	1.00[EUR][1000 genomes]
rs7853756	1.00[EUR][1000 genomes]
rs7856901	1.00[EUR][1000 genomes]
rs7861787	1.00[EUR][1000 genomes]
rs7862669	1.00[EUR][1000 genomes]
rs7871076	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1041195	chr9:97054795-97402378	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	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
3	nsv614918	chr9:97380597-97412037	Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	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:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97400200-97402200	Active TSS	Liver	Liver
2	chr9:97400400-97401600	Flanking Active TSS	Duodenum Mucosa	Duodenum
3	chr9:97400400-97401800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
4	chr9:97400400-97402000	Active TSS	Stomach Mucosa	stomach
5	chr9:97400600-97401200	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr9:97400600-97401200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
7	chr9:97400600-97401200	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr9:97400600-97401400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
9	chr9:97400600-97401400	Transcr. at gene 5' and 3'	Fetal Intestine Small	intestine
10	chr9:97400600-97401400	Flanking Active TSS	Pancreas	Pancrea
11	chr9:97400600-97401600	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
12	chr9:97400600-97401600	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
13	chr9:97400600-97401600	Bivalent/Poised TSS	Fetal Intestine Large	intestine
14	chr9:97400600-97402200	Bivalent/Poised TSS	Fetal Kidney	kidney
15	chr9:97400600-97402200	Active TSS	Rectal Mucosa Donor 29	rectum
16	chr9:97400600-97402400	Bivalent/Poised TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr9:97400800-97401200	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
18	chr9:97400800-97401200	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr9:97400800-97401200	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
20	chr9:97400800-97401400	Bivalent Enhancer	Placenta Amnion	Placenta Amnion
21	chr9:97400800-97401600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
22	chr9:97400800-97401800	Flanking Active TSS	Right Ventricle	heart
23	chr9:97400800-97402200	Active TSS	Gastric	stomach
24	chr9:97401000-97401200	Bivalent/Poised TSS	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr9:97401000-97401200	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr9:97401000-97401200	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
27	chr9:97401000-97401200	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
28	chr9:97401000-97401200	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
29	chr9:97401000-97401200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
30	chr9:97401000-97401200	Flanking Bivalent TSS/Enh	Primary T helper 17 cells PMA-I stimulated	--
31	chr9:97401000-97401200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr9:97401000-97401200	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
33	chr9:97401000-97401200	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr9:97401000-97401200	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr9:97401000-97401200	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr9:97401000-97401200	Flanking Active TSS	Colonic Mucosa	Colon
37	chr9:97401000-97401200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
38	chr9:97401000-97401200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
39	chr9:97401000-97401200	Bivalent Enhancer	Fetal Muscle Leg	muscle
40	chr9:97401000-97401200	Bivalent Enhancer	Placenta	Placenta
41	chr9:97401000-97401200	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
42	chr9:97401000-97401200	Bivalent Enhancer	Skeletal Muscle Female	skeletal muscle
43	chr9:97401000-97401200	Flanking Active TSS	Small Intestine	intestine
44	chr9:97401000-97401200	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach
45	chr9:97401000-97401400	Bivalent Enhancer	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr9:97401000-97401400	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
47	chr9:97401000-97401400	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
48	chr9:97401000-97401400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
49	chr9:97401000-97401400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
50	chr9:97401000-97401400	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood

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