Variant report

Variant	rs17879533
Chromosome Location	chr1:94369259-94369260
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:94343732..94346422-chr1:94366022..94369432,3	MCF-7	breast:
2	chr1:94368166..94370770-chr1:94373424..94375142,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000023909	Chromatin interaction
ENSG00000067334	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs17878450	0.81[AFR][1000 genomes]
rs17878692	0.81[AFR][1000 genomes]
rs17880789	0.81[AFR][1000 genomes]
rs17881619	0.91[AFR][1000 genomes]
rs6689857	0.91[AFR][1000 genomes]
rs6694884	0.81[AFR][1000 genomes]
rs7527855	0.91[AFR][1000 genomes]
rs7542162	0.81[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv523355	chr1:94351328-94385591	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:94345000-94374200	Weak transcription	Gastric	stomach
2	chr1:94345000-94374200	Weak transcription	Spleen	Spleen
3	chr1:94345200-94374000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr1:94345200-94374200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr1:94345400-94369400	Weak transcription	Colonic Mucosa	Colon
6	chr1:94345400-94373200	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr1:94345400-94373200	Weak transcription	Brain Substantia Nigra	brain
8	chr1:94345400-94373800	Weak transcription	Fetal Stomach	stomach
9	chr1:94345400-94374000	Weak transcription	Right Ventricle	heart
10	chr1:94345600-94369400	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr1:94345600-94369400	Weak transcription	Fetal Lung	lung
12	chr1:94345600-94369800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr1:94345600-94371600	Weak transcription	Fetal Kidney	kidney
14	chr1:94345600-94373000	Weak transcription	Fetal Brain Female	brain
15	chr1:94345600-94373200	Weak transcription	Brain Cingulate Gyrus	brain
16	chr1:94345600-94373200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr1:94345600-94373200	Weak transcription	Fetal Brain Male	brain
18	chr1:94345600-94373400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr1:94345600-94373400	Weak transcription	Psoas Muscle	Psoas
20	chr1:94345600-94373400	Weak transcription	Stomach Mucosa	stomach
21	chr1:94345600-94373600	Weak transcription	Brain Germinal Matrix	brain
22	chr1:94345800-94371200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr1:94347400-94374200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr1:94350600-94369400	Strong transcription	HMEC	breast
25	chr1:94352800-94370400	Weak transcription	Lung	lung
26	chr1:94352800-94373000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr1:94354200-94370400	Weak transcription	Small Intestine	intestine
28	chr1:94354200-94372600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr1:94354600-94373400	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr1:94356600-94369400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr1:94356600-94372600	Weak transcription	Colon Smooth Muscle	Colon
32	chr1:94357200-94373800	Weak transcription	Thymus	Thymus
33	chr1:94357400-94374000	Weak transcription	Aorta	Aorta
34	chr1:94357600-94369400	Weak transcription	Primary T cells from cord blood	blood
35	chr1:94357600-94374200	Weak transcription	Pancreas	Pancrea
36	chr1:94357800-94373200	Weak transcription	Esophagus	oesophagus
37	chr1:94357800-94374000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr1:94359800-94370000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr1:94359800-94373800	Weak transcription	Rectal Smooth Muscle	rectum
40	chr1:94359800-94374000	Weak transcription	Fetal Muscle Trunk	muscle
41	chr1:94360400-94373200	Weak transcription	H1 Cell Line	embryonic stem cell
42	chr1:94360800-94373000	Weak transcription	Fetal Heart	heart
43	chr1:94362400-94369400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
44	chr1:94362400-94373200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr1:94362400-94373200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
46	chr1:94362400-94373200	Weak transcription	Brain Angular Gyrus	brain
47	chr1:94362600-94369400	Weak transcription	Primary B cells from peripheral blood	blood
48	chr1:94362600-94369400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
49	chr1:94362600-94373200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr1:94362600-94373400	Weak transcription	Stomach Smooth Muscle	stomach

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