Variant report

Variant	rs28754375
Chromosome Location	chr7:98933509-98933510
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:98921929..98925075-chr7:98932538..98936577,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000241685	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10046490	0.81[AMR][1000 genomes]
rs10085823	0.86[AMR][1000 genomes]
rs10155956	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10228787	0.90[AMR][1000 genomes]
rs10237212	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10240258	0.90[AMR][1000 genomes]
rs10242241	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10247946	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10263954	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10264582	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10274806	0.82[AMR][1000 genomes]
rs10277362	0.86[AMR][1000 genomes]
rs11505837	0.90[AMR][1000 genomes]
rs11505838	0.90[AMR][1000 genomes]
rs11769124	0.90[AMR][1000 genomes]
rs17161650	0.81[AMR][1000 genomes]
rs28378107	0.86[AMR][1000 genomes]
rs28576900	0.86[AMR][1000 genomes]
rs28655791	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58728048	0.90[AMR][1000 genomes]
rs59463042	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60971917	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61673162	0.90[AMR][1000 genomes]
rs61747205	0.86[AMR][1000 genomes]
rs6962328	0.86[AMR][1000 genomes]
rs755145	0.90[AMR][1000 genomes]
rs9656059	0.90[AMR][1000 genomes]
rs9969388	0.81[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	esv3433144	chr7:98777878-99060209	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	nsv831068	chr7:98819572-99006481	Weak transcription Active TSS Genic enhancers Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:98924400-98957200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr7:98924600-98971600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr7:98924800-98935600	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr7:98924800-98935600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr7:98924800-98935800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr7:98924800-98936200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr7:98925200-98965200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr7:98925400-98935600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr7:98925600-98936200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr7:98925800-98933600	Weak transcription	Colonic Mucosa	Colon
11	chr7:98926200-98934200	Weak transcription	Spleen	Spleen
12	chr7:98926400-98935600	Weak transcription	Brain Substantia Nigra	brain
13	chr7:98926400-98935800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr7:98926600-98941600	Weak transcription	Psoas Muscle	Psoas
15	chr7:98927200-98966800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr7:98927400-98935400	Weak transcription	HSMMtube	muscle
17	chr7:98927400-98936400	Weak transcription	Colon Smooth Muscle	Colon
18	chr7:98927600-98934200	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr7:98927600-98944200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr7:98927800-98960600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr7:98928200-98938600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
22	chr7:98928400-98934800	Weak transcription	HepG2	liver
23	chr7:98928400-98967200	Strong transcription	Fetal Thymus	thymus
24	chr7:98928600-98965200	Strong transcription	Dnd41	blood
25	chr7:98929000-98935800	Weak transcription	Pancreas	Pancrea
26	chr7:98929000-98965600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
27	chr7:98929400-98933800	Strong transcription	NHEK	skin
28	chr7:98929400-98938600	Strong transcription	K562	blood
29	chr7:98929400-98965200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr7:98929600-98938600	Strong transcription	GM12878-XiMat	blood
31	chr7:98929600-98962800	Strong transcription	Primary T cells fromperipheralblood	blood
32	chr7:98929600-98965400	Strong transcription	Primary neutrophils fromperipheralblood	blood
33	chr7:98929800-98935200	Weak transcription	HMEC	breast
34	chr7:98929800-98935800	Weak transcription	NHLF	lung
35	chr7:98929800-98965000	Strong transcription	Duodenum Mucosa	Duodenum
36	chr7:98930000-98936400	Weak transcription	Stomach Mucosa	stomach
37	chr7:98930000-98950200	Strong transcription	Rectal Mucosa Donor 31	rectum
38	chr7:98930000-98962800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr7:98930000-98968200	Strong transcription	Fetal Intestine Small	intestine
40	chr7:98930200-98935400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr7:98930200-98936800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr7:98930200-98954600	Weak transcription	Fetal Heart	heart
43	chr7:98930200-98968400	Strong transcription	Fetal Stomach	stomach
44	chr7:98930400-98938600	Strong transcription	Fetal Intestine Large	intestine
45	chr7:98930600-98933800	Strong transcription	Primary B cells from peripheral blood	blood
46	chr7:98930600-98938600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr7:98930600-98938600	Strong transcription	Sigmoid Colon	Sigmoid Colon
48	chr7:98930600-98946000	Strong transcription	Osteobl	bone
49	chr7:98930600-98950400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr7:98930600-98965200	Strong transcription	Primary T helper cells fromperipheralblood	blood

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